Trypanosoma brucei brucei TREU927 chromosome 3, complete sequence.
Eukaryota; Discoba; Euglenozoa; Kinetoplastea; Metakinetoplastina; Trypanosomatida; Trypanosomatidae; Trypanosoma.
The genome of the African trypanosome Trypanosoma brucei
Comparative genomics of trypanosomatid parasitic protozoa
Sequencing, closure, and annotation of Trypanosoma brucei chromosomes 2 through 8
Submitted (10-APR-2018) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA
Submitted (12-APR-2005) The Institute for Genomic Research, 9712 Medical Center Dr, Rockville, MD 20850, USA
PROVISIONAL REFSEQ: This record has not yet been subject to final\nNCBI review. The reference sequence is identical to CP000066.\nOn or before Jul 27, 2006 this sequence version replaced\nNW_921346.1, NW_921276.1, NW_921262.1, NW_921330.1, NW_921340.1,\nNW_921315.1, NW_921293.1, NW_921265.1, NW_921280.1, NW_921312.1,\nNW_921339.1, NW_921345.1, NW_921289.1.\nChromosome lacks telomere sequences.\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: INSDC submitter\nAnnotation Status :: Full annotation\nAnnotation Pipeline :: Eukaryotic Annotation Propagation Pipeline\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
single VAT derivative of TREU (Trypanosomiasis Research Edinburgh University) 927/4 (GPAL/KE/70/EATRO 1534)
UDP-Gal or UDP-GlcNAc-dependent glycosyltransferase (pseudogene), putative
expression site-associated gene (ESAG, pseudogene), putative
variant surface glycoprotein (VSG, pseudogene), putative
variant surface glycoprotein (VSG), putative
variant surface glycoprotein (VSG, atypical), putative
expression site-associated gene (ESAG) protein, putative
similar to GB:AAB04055.1: expression site-associated gene Im {Trypanosoma brucei rhodesiense}(PMID:8621657)
similarity to GB:CAB43348.1: ESAG11 protein {Trypanosoma brucei}(PMID:11087933)
leucine-rich repeat protein (LRRP), putative
similarity to GB:AAD45278.1: adenosine transporter 1 {Trypanosoma brucei} (PMID:10398598)
N-acetyltransferase complex ARD1 subunit, putative
similar to SP:Q05885: N-terminal acetyltransferase complex ARD1 subunit homolog(EC 2.3.1.-){Leishmania donovani}(PMID:8378337)
sequence corresponds to BAC RPCI93-27F10
ATP-dependent DEAD/H RNA helicase, putative
similar to SP:O48921: Cytochrome P450 97B2 (EC 1.14.-.-). {Glycine max}
identical to GP:9622228: 20S proteasome alpha 7 subunit {Trypanosoma brucei}(PMID:12600991;PMID:11309374)
similar to DNA repair protein rad2. (Swiss-Prot:P39750) [Schizosaccharomyces pombe]
acyl carrier protein, mitochondrial precursor, putative
protein transport protein Sec61 gamma subunit, putative
frataxin-like, mitochondrial precursor, putative
hypothetical protein, conserved (pseudogene); This gene was artificially interrupted by a Tn10 transposon. An unaltered copy of the gene can be created by fusion of Tb03.27F10.200 and Tb03.27F10.220. The Tn10 insertion is an artefact from the BAC construction and is not present in other BACs covering this region or in Tb927 genomic DNA.
The Tn10 insertion is an artefact from the BAC construction and is not present in other BACs covering this region or in Tb927 genomic DNA.
This Tn10 insertion is an artefact from the BAC construction and is not present in other BACs covering this region or in Tb927 genomic DNA.
peptide chain release factor 1, putative
GTP-binding nuclear protein rtb2, putative
similar to GP:606985: GTP-binding protein rtb2 {Trypanosoma brucei}
DNA polymerase delta subunit 2, putative
protein transport protein Sec24C, putative
serine/threonine-protein phosphatase, putative
DNA-directed RNA polymerase subunit, putative
similar over 84aa to Cullin homolog 4B (CUL-4B). (Swiss-Prot:Q13620) [Homo sapiens]; similar to Cullin 1 (Abnormal cell lineage 19 protein). (Swiss-Prot:Q17389) [Caenorhabditis elegans]
cytosine-specific DNA methylase, putative
ATP synthase beta chain, mitochondrial precursor
identical to GB:AAG23340.1: ATPase beta subunit {Trypanosoma brucei brucei}
COX VII: curated by Dr. Keith Matthews (University of Manchester). Evidence is based on purification of the components of the cytochrome oxidase complex and N-terminal sequence determination. Manuscript in preparation.
similar to SP:Q04960: DnaJ protein homolog (DNAJ-1) {Cucumis sativus} and to SP:P42824: DnaJ protein homolog 2. {Allium porrum}; similar to DnaJ homolog subfamily A member 2 (mDj3) (Swiss-Prot:Q9QYJ0) [Mus musculus]
similar to Spastin (Fragment). (Swiss-Prot:Q9QYY8) [Mus musculus]
variant surface glycoprotein (VSG)-related, putative
VSG-related: pers. comm. Dave Barry (University of Glasgow, UK)
sequence corresponds to BAC RPCI93-30P12
diacylglycerol acyltransferase, putative
U6 snRNA-associated Sm-like protein LSm8p
identical to GB:AAS57930.1: Lsm8p {Trypanosoma brucei} (PMID:14990572)
pyruvate dehydrogenase E1 beta subunit, putative
similar to Pyruvate dehydrogenase E1 component beta subunit, mitochondrialprecursor (EC 1.2.4.1) (PDHE1-B). (Swiss-Prot:Q38799) [Arabidopsis thaliana;]
3-oxo-5-alpha-steroid 4-dehydrogenase, putative
similar to Ribosomal large subunit pseudouridine synthase D (EC 4.2.1.70)(Pseudouridylate synthase) (Uracil hydrolyase). (Swiss-Prot:P50513) {Zymomonas mobilis}
Predicted DC1 (Divergent C1) Pfam domain (PF03107) below Pfam recommended threshold at residues 795-825 (pers. comm. K. Mensa-Wilmot, University of Georgia); similar to Possible global transcription activator SNF2L1. (Swiss-Prot:P28370) [Homo sapiens]
similar to GB:AAM43836.1: T-cell activation protein phosphatase 2C {Homo sapiens}
translation elongation factor EF-2, putative
similar to Elongation factor 2 (EF-2). (Swiss-Prot:P13060) [Drosophila melanogaster;]
succinyl-CoA synthetase alpha subunit, putative
similar to Vacuolar protein sorting 33. (Swiss-Prot:Q9P7V6) [Schizosaccharomyces pombe]; similar to Vacuolar protein sorting 33A (r-vps33a). (Swiss-Prot:Q63615) [Rattus norvegicus]
COP9 signalosome complex subunit 2, putative
similar to COP9 signalosome complex subunit 2 (Signalosome subunit 2) (SGN2)(Thyroid receptor interacting protein 15) (TRIP15). (Swiss-Prot:Q15647) [Homo sapiens;Mus musculus;]
identical to GP:15384797: peroxin-2 {Trypanosoma brucei} (PMID:12077356)
serine/threonine-protein kinase, putative
pumilio/PUF RNA binding protein 8, putative
PUF8 : personnal communication (Van-Duc Luu and Christine Clayton, University of Heidelberg)
similar to GB:AAM69035.1: helicase 2 {Leishmania major}
cytochrome c oxidase copper chaperone, putative
similar to SP:P54644: RAC-family serine/threonine kinase homolog (EC 2.7.1.-). {Dictyostelium discoideum}
6-phosphofructo-2-kinase/fructose-2, 6-biphosphatase, putative
similar to GB:AAM69055.1: RNA binding protein 1 {Leishmania major}; similar to Peter pan protein. (Swiss-Prot:Q9VDE5) [Drosophila melanogaster]
similar to GB:AAQ72355.1: soluble inorganic pyrophosphatase {Leishmania major}; similar to Inorganic pyrophosphatase (EC 3.6.1.1) (Pyrophosphate phospho-hydrolase) (PPase). (Swiss-Prot:Q15181) [Homo sapiens;]
elongation initiation factor 2 alpha subunit, putative
TbRBP6: pers. comm. C. Clayton, University of Heidelberg; similar to GB:AAP42142.1: RNA-binding protein 6 {Trypanosoma cruzi}; similar to Transformer-2 protein homolog (TRA-2 alpha). (Swiss-Prot:Q13595) [Homo sapiens]
inosine-adenosine-guanosine-nucleoside hydrolase
identical to GP:2645495: inosine-adenosine-guanosine-nucleoside hydrolase; IAG-nucleoside hydrolase {Trypanosoma brucei brucei}
3', 5'-cyclic nucleotide phosphodiesterase, putative
similar to Calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B (Swiss-Prot: Q01061) [Bos taurus (Bovine)]
serine/threonine-protein kinase NEK1, putative
This entire sequence corresponds to a 90,616 bp segment at the SP6 end of BAC clone RPCI93-3K10.
peptidyl-prolyl cis-trans isomerase NIMA-interacting 4, putative
identical to GP:7108951: polyA polymerase {Trypanosoma brucei} (PMID:10688355)
identical to GB:AAC47836.1: 6-phospho-1-fructokinase {Trypanosoma brucei}(PMID:9461292)
similar to Calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase (Swiss-Prot:Q14123) [Homo sapiens]
similar to SP:O43093: Kinesin heavy chain (Synkin). {Syncephalastrum racemosum}
The T7 end of BAC clone RPCI93-3K10 contains a large number of 118pb repeats that span as much as 30KB of the BAC. This region was not closed. Instead, this sequence contains a few number of repeats only and 110 Ns were inserted upstream the repeat.
sequence corresponds to BAC RPCI93-25B21
ADP-ribosylation factor-like protein 3A, putative
similar to SP:P36405: ADP-ribosylation factor-like protein 3. {Homo sapiens}
similar to Cytochrome b5. (Swiss-Prot:P00174) [Gallus gallus]
U2 small nuclear ribonucleoprotein B, putative
similar to U2 small nuclear ribonucleoprotein B SP:P08579 {Homo sapiens}
sequence corresponds to BAC RPCI93-28C22
lipophosphoglycan biosynthetic protein, putative
similar to GP:19880568: lipophosphoglycan biosynthetic protein {Leishmania donovani} (PMID: 12198148)
U3 small nucleolar ribonucleoprotein protein MPP10, putative
peroxisomal targeting signal type 2 receptor, putative
similar to SP:P55975: Elongation factor Ts (EF-Ts). {Helicobacter pylori}
similarity to Bardet-Biedl syndrome 7 protein homolog (BBS2-like protein 1). (Swiss-Prot:Q8K2G4) [Mus musculus]
similar over 142 aa to SP:Q08935: 29 kDa ribonucleoprotein A, chloroplast precursor (CP29A). {Nicotiana sylvestris}
flagellar radial spoke protein-like, putative
Golgi vesicular membrane trafficking protein, putative
similar to GP:18478576: ABCA1.2 transporter {Leishmania tropica}; similar to ATP-binding cassette, sub-family A, member 3 (ATP-binding cassettetransporter 3) (ATP-binding cassette 3) (ABC-C transporter). (Swiss-Prot:Q99758) {Homo sapiens}
identical to GP:3718003: tryparedoxin {Trypanosoma brucei} (PMID:9714547;PMID:11867629)
similar to Lipase precursor (EC 3.1.1.3) (Triacylglycerol lipase). (Swiss-Prot:P19515) [Rhizomucor miehei;]
similar to Lipase precursor (EC 3.1.1.3) (Triacylglycerol lipase). (Swiss-Prot:P19515) [Rhizomucor miehei]
carnitine O-palmitoyltransferase II, putative
similar to Carnitine O-palmitoyltransferase II, mitochondrial precursor(EC 2.3.1.21) (CPT II) (Swiss-Prot:P23786) [Homo sapiens]
similar to SP:Q9H1D9: DNA-directed RNA polymerases III 39 kDa polypeptide (EC 2.7.7.6) (RNA polymerase III C39 subunit){Homo sapiens}(PMID:9171375)
similar to Polyadenylate-binding protein 3 (Poly(A)-binding protein 3) (PABP 3). (Swiss-Prot:O64380) [Arabidopsis thaliana]
In this polyT region, five quality sequences agree with the consensus but one additional quality sequence shows one less T.
similar over 202 aa to SP:P19339: Sex-lethal protein. {Drosophila melanogaster}
In this polyT region, three quality sequences agree with the consensus but two additional quality sequences show one less T.
In this TA rich region, 21 quality sequences agree with the consensus but 11 additional quality sequences show an extra TA.
similar to GP|459650|gb|AAC46487.1||U06070 poly(A) binding protein {Trypanosoma cruzi} (PMID:7870134) similar to GP:4104919: poly(A) binding protein I {Trypanosoma brucei} (PMID:10029314)
clathrin coat assembly protein AP19, putative
similar to GP|2231700|gb|AAB96888.1||U92085 clathrin assembly protein AP19 homolog {Arabidopsis thaliana} (PMID:9426606); similar to Adapter-related protein complex 1 sigma 1B subunit (Sigma-adaptin 1B)(Adaptor protein complex AP-1 sigma-1B subunit) (Golgi adaptor HA1/AP1 adaptin sigma-1B subunit) (Clathrin assembly protein complex 1 sigma-1B small chain) (Sigma 1B subunit of AP-1 clathrin) (DC22). (Swiss-Prot:P56377) [Homo sapiens;]
phosphatidylinositol 4-kinase alpha, putative
similar to SP:P37297 Phosphatidylinositol 4-kinase STT4 (EC 2.7.1.67) (PI4-kinase) (PtdIns-4-kinase){Saccharomyces cerevisiae} and similar to Phosphatidylinositol 4-kinase alpha (EC 2.7.1.67) (PI4-kinase)(PtdIns-4-kinase) (PI4K-alpha). (Swiss-Prot:P42356) [Homo sapiens]
similar to Prothymosin alpha. (Swiss-Prot:P06454) [Homo sapiens;]
endosomal integral membrane protein, putative
similar to MutS protein homolog 5. (Swiss-Prot:Q19272) [Caenorhabditis elegans]
similar to: SP:Q26789: 73 kDa paraflagellar rod protein (73 kDa PFR protein) (PFR-C/PFR-D). {Trypanosoma brucei brucei}
similar to SP:Q26789: 73 kDa paraflagellar rod protein (73 kDa PFR protein) (PFR-C/PFR-D). {Trypanosoma brucei brucei}
similar to 40S ribosomal protein S15a. (Swiss-Prot:P39027) [Homo sapiens;Mus musculus;Rattus norvegicus;]
dihydrolipoamide dehydrogenase, putative
protein farnesyltransferase alpha subunit, putative
serine/threonine protein kinase, putative
N-acetylglucosaminyltransferase, putative
UDP-glucose:glycoprotein glucosyltransferase, putative
similar to SP:Q06309: Cell division protein kinase 2 homolog CRK1 (EC 2.7.1.-). {Leishmania mexicana}
RAB GDP dissociation inhibitor alpha, putative
similar to GP:8132056: phosphatase {Trypanosoma brucei}
similar to Puromycin-sensitive aminopeptidase (EC 3.4.11.-) (PSA). (Swiss-Prot:P55786) [Homo sapiens;]
differs by 2 frameshifts from GP:8132056: phosphatase {Trypanosoma brucei}
similar to Puromycin-sensitive aminopeptidase (EC 3.4.11.-) (PSA). (Swiss-Prot:P55786) [Homo sapiens]
enoyl-CoA hydratase, mitochondrial precursor, putative
similar to Enoyl-CoA hydratase, mitochondrial precursor (EC 4.2.1.17) (Shortchain enoyl-CoA hydratase) (SCEH) (Enoyl-CoA hydratase 1). (Swiss-Prot:P14604) [Rattus norvegicus]
ubiquinone biosynthesis protein COQ7 homolog, putative
hypothetical protein, conserved (pseudogene)
similar to Trichohyalin. (Swiss-Prot:Q07283) [Homo sapiens]
identical to GP:15990777: KU70 protein {Trypanosoma brucei}
similar to SP:P49669: 60S ribosomal protein L4 (L1). {Trypanosoma brucei brucei}
similar to GB:AAF04973.1, GB:AAO44000.1, and GB:AAO44002.1: tryparedoxin {Trypanosoma cruzi}; similar to Tryparedoxin. (Swiss-Prot:O77404) {Trypanosoma brucei brucei}; similar to Thioredoxin (TRX). (Swiss-Prot:P80579) {Alicyclobacillus acidocaldarius}
DNA repair helicase and transcription factor protein, putative
similar to DNA excision repair protein haywire (ERCC-3 homolog protein). (Swiss-Prot:Q02870) [Drosophila melanogaster] and to TFIIH basal transcription factor complex helicase XPB subunit(EC 3.6.1.-) (Basic transcription factor 2 89 kDa subunit) (BTF2-p89)(TFIIH 89 kDa subunit) (DNA-repair protein complementing XP-B cells)(Xeroderma pigmentosum group B complementing protein) (DNA excision repair protein ERCC-3). (Swiss-Prot:P19447) [Homo sapiens]
cofilin/actin depolymerizing factor, putative
similar to SP:O14102: Spliceosome-associated protein 49. {Schizosaccharomyces pombe}
ADP-ribosylation factor GTPase activating protein, putative
similar to Centaurin beta 5 (Cnt-b5) (Swiss-Prot:Q96P50) [Homo sapiens]
Hsc70-interacting protein (Hip), putative
similar to Tubulin tyrosine ligase-like protein 1. (Swiss-Prot:O95922) {Homo sapiens}
protein transport protein Sec24A, putative
similar to Transcriptional regulator ATRX (X-linked nuclear protein)(Heterochromatin protein 2) (HP1 alpha-interacting protein) (HP1-BP38protein). (Swiss-Prot:Q61687) [Mus musculus] similar to X-linked nuclear protein (GB:CAD35753.1){Dugesia japonica}
DNA-directed RNA polymerase II subunit 3, putative
26S proteasome regulatory non-ATPase subunit
similar to GP:18463049: proteasome regulatory non-ATP-ase subunit 1 {Trypanosoma brucei} (PMID:11854272) (PMID:12213827)
similar to GP:393396: Tb-292 membrane associated protein {Trypanosoma brucei} PMID:8132566
similar to SP:Q9D0P8: Putative GTP-binding protein RAY-like (RAB-like protein 4). [Mouse] {Mus musculus}
similar over 241aa to Syntaxin 7 (Swiss-Prot:O15400) [Homo sapiens;]
ribosomal protein L3 mitochondrial, putative
similar to SP:Q9LRN8: 50S ribosomal protein L3-2, chloroplast precursor. {Arabidopsis thaliana}
3,2-trans-enoyl-CoA isomerase, mitochondrial precursor, putative
similar to 3,2-trans-enoyl-CoA isomerase, mitochondrial precursor (EC 5.3.3.8)(Dodecenoyl-CoA delta-isomerase). (Swiss-Prot:P42125) [Mus musculus]
similar to Swiss-Prot:Q01389 Serine/threonine protein kinase BCK1/SLK1/SSP31 (EC 2.7.-.-). {Saccharomyces cerevisiae}
UDP-Gal or UDP-GlcNAc-dependent glycosyltransferase, putative
UDP-Gal or UDP-GlcNAc-dependent glycosyltransferase, putative : curated by Mike Ferguson.
retrotransposon hot spot protein (RHS, pseudogene), putative; RHS, very degenerate: pers. comm. Frederic Bringaud, CNRS/BordeauxII University. Belongs to the RHS family. (PMID:12455980)
similar to PIR:B39581: GRESAG protein 9u (fragment) {Trypanosoma equiperdum}