Gene loci information

Transcript annotation

  • This transcript has been annotated as Transcription initiation factor TFIID subunit 5.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_3 g1205 g1205.t4 TSS g1205.t4 8734543 8734543
chr_3 g1205 g1205.t4 isoform g1205.t4 8734641 8736774
chr_3 g1205 g1205.t4 exon g1205.t4.exon1 8734641 8735960
chr_3 g1205 g1205.t4 cds g1205.t4.CDS1 8735039 8735960
chr_3 g1205 g1205.t4 exon g1205.t4.exon2 8736020 8736774
chr_3 g1205 g1205.t4 cds g1205.t4.CDS2 8736020 8736774
chr_3 g1205 g1205.t4 TTS g1205.t4 8736839 8736839

Sequences

>g1205.t4 Gene=g1205 Length=2075
ATGGCAAATAAAAATGACATCCTAGCAGTATTGCAGGTGTTGAAAAAGTACAATTTAAAG
GTGAATTTCATTTCAATGAATTCAAAACAATTTAAAATTGATTTTGTGTTACATATTTTA
TCAGGGAACTGAAAATCTCTTAAGACAAGAAGCTAATCTTACAGATATTCCTGAAAATTT
CACACATGATGCATCTGACAGCGTTCTGCAAGCATATCAAAGTGAAGGCGATCCAAATTC
CTATGAATCTTGCTATATTGAGTTGAGAAAATTTGTTGATTCGGCACTGGATATTTATAA
AGTAAATTGTTTAAAATTTCATACTATATCTATTGACATATATCTCGTTTGTTTTTTAGT
ATGAACTCAGTATGATCCTTTATCCAGTTTTTGTGCATATGTATATTGAGCTCGTTTATA
ATAATCATGAAGAACAAGCGAAAGCATTGATGGAAAAATTTGGTGAAGAGCAGGAATATT
ATTATCAAGATGATTTAAAAAGACTCGCAATGATAACTAAAAGAGACCAAATGAGTGGCA
ATGATTTGACTGATACTTTTAAATCTAATGAATTTATTATAAGAATATCTCGCGACACCC
TTTCACTTCTAAAACGTCACTTACAAGAAAAGAAAGCAAGTGTTGTTATGAACATTATAA
ATGAGCATTTGTATTTTGATTTATATGAAGGAATGGCTAGAAATAAGAAGCAATGCGATG
CAACTGCTGGTGCTTTGCTTGGTGAAGCAAGAAGACAAGACAACAAAGTTAAAGTATATT
ATGGATTATTGAAGGAACCAGATTATCAACAAATGACTACAACACAAGCACCACCGCCTG
AAGAGGATGACGATGAAGTTCAAGATGGTGATAAACCAAAGAAAAAAAAACAAAAGAAGG
ATCCACTATTTTCAAAAAAATCCAAAACTGACCCAAATGCACCTGCTTCTGATAGAATTC
CTCTACCTCAACTAAGAGATAATGATAAAAGTGAAAAAATTAAAGCATTGCGTGAAGCAC
AAAAAAGAGTTAATCTTGGTCCAGATAGTTTACCATCAGTTTGTTACTACACTCTATTGA
ACTCACTTTATTCTGTAACTTGTGCTGAAATAAGTGAAGACTCAAGTCTCGTTGCTATTG
GATTTTCGGATGCTACAATAAAAATTTGGCCGCTCACACCTGCAAAACTTCGAGAGCTCA
AATCAGCTGAACAATTAAAAGATATTGATCGCGATGTTGATGATGTTCTTGTGAGAATGA
TGGATGATAGGAAAGCAGAAACATCAAGAATTTTTACTGGACATAGTGGACCTGTATATC
GTTGCTCATTTACTTTTGATCGATCATTATTGCTGTCTTGTTCAGAAGATAGTACAATTA
GATTATGGTCACTTCAAACATGGACTTGCTTAGTGGTTTATAAAGGTCATTTAAATCCAG
TTTGGGATGTTCGTTTTTCACCACACGGACATTATTTTGTGAGTTGTTCACATGATAAAA
CAGCAAGAGTATGGGCAACAGATTCCCATCAACCTCTCCGCATATTCACTGGACATTTAT
CTGACGTTGATTGTTGTGTATTTCATCCAAATTCAAATTATGTAGCAACAGGATCGTCAG
ATCGTACTGTAAGATTGTGGGATGTTTTATCAGGAAATCATGTAAGATTGATGACAGGTC
ATAAAGCATCAATTTTCTCTCTTGCATTTTCAATGTGTGGACGATATTTGGCATCAGGTG
GAAGTGATAAAGTAATAAATCTATGGGATTTAGCTCATGGTCATTTAGTTGCAACTCTTG
AAGGCCATACGTCTACAATTCATACCTTATGCTTCAGTCGTGATGGAACAATTTTAGCAA
CAGGTGCACTTGACTGTAATCTAAAATTATGGGATTTTTCAAAGTTATGTGAAGACTTGA
GTGGTGAAAATGTAAACGTTTCTCATAATCCAGATGTTAGAAGTGGAGAAAATTATTTAC
TCCGAACTTTTCCAACAAAACAATCACCCTTTATTGCTCTACATTTCACTCGTCGTAACT
TGCTGTATGGTGTAGGAATGTTTGAAAGCTCTTAA

>g1205.t4 Gene=g1205 Length=558
MYIELVYNNHEEQAKALMEKFGEEQEYYYQDDLKRLAMITKRDQMSGNDLTDTFKSNEFI
IRISRDTLSLLKRHLQEKKASVVMNIINEHLYFDLYEGMARNKKQCDATAGALLGEARRQ
DNKVKVYYGLLKEPDYQQMTTTQAPPPEEDDDEVQDGDKPKKKKQKKDPLFSKKSKTDPN
APASDRIPLPQLRDNDKSEKIKALREAQKRVNLGPDSLPSVCYYTLLNSLYSVTCAEISE
DSSLVAIGFSDATIKIWPLTPAKLRELKSAEQLKDIDRDVDDVLVRMMDDRKAETSRIFT
GHSGPVYRCSFTFDRSLLLSCSEDSTIRLWSLQTWTCLVVYKGHLNPVWDVRFSPHGHYF
VSCSHDKTARVWATDSHQPLRIFTGHLSDVDCCVFHPNSNYVATGSSDRTVRLWDVLSGN
HVRLMTGHKASIFSLAFSMCGRYLASGGSDKVINLWDLAHGHLVATLEGHTSTIHTLCFS
RDGTILATGALDCNLKLWDFSKLCEDLSGENVNVSHNPDVRSGENYLLRTFPTKQSPFIA
LHFTRRNLLYGVGMFESS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g1205.t4 CDD cd08044 TAF5_NTD2 1 97 3.90327E-31
17 g1205.t4 CDD cd00200 WD40 232 499 8.69789E-79
16 g1205.t4 Gene3D G3DSA:1.25.40.500 - 1 97 5.7E-27
15 g1205.t4 Gene3D G3DSA:2.130.10.10 - 131 377 2.2E-38
14 g1205.t4 Gene3D G3DSA:2.130.10.10 - 378 536 2.7E-45
28 g1205.t4 MobiDBLite mobidb-lite consensus disorder prediction 136 196 -
8 g1205.t4 PANTHER PTHR19879 TRANSCRIPTION INITIATION FACTOR TFIID 1 555 8.8E-165
11 g1205.t4 PRINTS PR00320 G protein beta WD-40 repeat signature 318 332 4.9E-9
9 g1205.t4 PRINTS PR00320 G protein beta WD-40 repeat signature 402 416 4.9E-9
10 g1205.t4 PRINTS PR00320 G protein beta WD-40 repeat signature 444 458 4.9E-9
1 g1205.t4 Pfam PF04494 WD40 associated region in TFIID subunit, NTD2 domain 1 91 1.8E-22
3 g1205.t4 Pfam PF00400 WD domain, G-beta repeat 232 257 0.11
7 g1205.t4 Pfam PF00400 WD domain, G-beta repeat 295 331 7.6E-7
6 g1205.t4 Pfam PF00400 WD domain, G-beta repeat 335 372 1.4E-8
5 g1205.t4 Pfam PF00400 WD domain, G-beta repeat 378 415 2.0E-11
2 g1205.t4 Pfam PF00400 WD domain, G-beta repeat 420 457 3.5E-6
4 g1205.t4 Pfam PF00400 WD domain, G-beta repeat 463 499 1.4E-7
25 g1205.t4 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 402 416 -
27 g1205.t4 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 444 458 -
26 g1205.t4 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 486 500 -
29 g1205.t4 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 299 508 56.447
34 g1205.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 299 340 13.55
33 g1205.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 341 382 13.783
31 g1205.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 383 424 16.657
30 g1205.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 425 466 15.688
32 g1205.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 467 501 14.352
19 g1205.t4 SMART SM00320 WD40_4 219 258 0.066
22 g1205.t4 SMART SM00320 WD40_4 292 331 3.5E-8
24 g1205.t4 SMART SM00320 WD40_4 334 373 7.3E-11
21 g1205.t4 SMART SM00320 WD40_4 376 415 6.3E-12
23 g1205.t4 SMART SM00320 WD40_4 418 457 6.9E-9
20 g1205.t4 SMART SM00320 WD40_4 460 499 2.9E-10
13 g1205.t4 SUPERFAMILY SSF160897 Taf5 N-terminal domain-like 1 96 3.4E-25
12 g1205.t4 SUPERFAMILY SSF50978 WD40 repeat-like 218 534 5.95E-79

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005515 protein binding MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values