Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative TAF5-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 5L.

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 g3579 g3579.t1 isoform g3579.t1 26528843 26531921
chr_3 g3579 g3579.t1 exon g3579.t1.exon1 26528843 26528902
chr_3 g3579 g3579.t1 cds g3579.t1.CDS1 26528843 26528902
chr_3 g3579 g3579.t1 exon g3579.t1.exon2 26529095 26530248
chr_3 g3579 g3579.t1 cds g3579.t1.CDS2 26529095 26530248
chr_3 g3579 g3579.t1 exon g3579.t1.exon3 26530310 26530720
chr_3 g3579 g3579.t1 cds g3579.t1.CDS3 26530310 26530720
chr_3 g3579 g3579.t1 exon g3579.t1.exon4 26530778 26530930
chr_3 g3579 g3579.t1 cds g3579.t1.CDS4 26530778 26530930
chr_3 g3579 g3579.t1 exon g3579.t1.exon5 26530993 26531140
chr_3 g3579 g3579.t1 cds g3579.t1.CDS5 26530993 26531140
chr_3 g3579 g3579.t1 exon g3579.t1.exon6 26531205 26531373
chr_3 g3579 g3579.t1 cds g3579.t1.CDS6 26531205 26531373
chr_3 g3579 g3579.t1 exon g3579.t1.exon7 26531438 26531612
chr_3 g3579 g3579.t1 cds g3579.t1.CDS7 26531438 26531612
chr_3 g3579 g3579.t1 exon g3579.t1.exon8 26531675 26531921
chr_3 g3579 g3579.t1 cds g3579.t1.CDS8 26531675 26531921
chr_3 g3579 g3579.t1 TTS g3579.t1 26532183 26532183
chr_3 g3579 g3579.t1 TSS g3579.t1 NA NA

Sequences

>g3579.t1 Gene=g3579 Length=2517
ATGAATAAAAATTCCATAAAATCTACACTTAATAATTATCTAAAACAGAAAAACTATCCG
ATAAATGAAAGATTTCGGAAAAGTGATCTAGTGTTAACACAATCAAAGGAGGACTTTTTA
ATGGATCTAAAAATTAATTCTGAAATCTCAAGAACTAATTCGTTTACATTTTCAAACATA
TCAAGTCTCAATGGAAGTTATGGAAGTCAAAGTTTAGTAGAGCAACAAATCAGTAAATTA
ATCAAATTTGTGCAGTGCCAGAGAAACAGTATAGTCAGAAAAGAGCTTGAACTGTTATTA
CCGCCAATTGTCTGTCATCTATATATAGAAATGTTAAAAGGCAAAGAATGGAAGCCAGCG
AATGATTTTCTGCGTAAATATGCTTGTCTCGTAGGCTCAGTGCAAGAAGTGTCACAACAG
AAAAATAATGGAAGTGACCCTTCATTTTTAGCGCCACATCCAATTCATTTCCTCCCGCAA
TCACATACATCACATCTTCATCAAAATATTTATAATAGATTCATACCAAGTACTTCTTCT
ACATCAAAACATCAATCACCGTGTTTAAATCAATTAAGTAGCATTGATGAGCAAAAGTTG
AATATGTTTAGAGAACTGATTAGCAATTTATCGAGTCTGAGACGTTTAGAAGATGTAAAG
GATAACAAACTTATTTGTAGTTTTCGATCGTGCAAGTACAAGGCAAAAATAGCAAATAAG
ACACTCTTTATGCTCAATAAATTTCTATCAAAGCACGGTCATGTACTTCTCATACAAATT
CTCCATCTTTGGTTTTGCATAGATCTTTACGATCTACATGATGATGATAGTAGTAGCAGT
AGCAGCAGTGGTAGTTCTTCTTCATCATCATCTTCCTCAGAAATGAACAATTTTGCAGAA
TATGCTGATAGTAATATGTTACATAGAAATAGATCACATTCATCATCGATGATAAAAACA
AATTCTATGCATGATAGATTCAATGATCATGATCCTTCATATTGTGATACTCTCGGAAAA
GATATTAAATTTAATGCAAATAAGTCTGCTCTCAATCAGACATGTGATGACAATTCGGAT
TTTTTTGATGGTGGAGGAAATAGTCATAGTAATAGCAATTTAAAAATGAAAAGACTGCAA
GAATGCTTACATCGAGTTGATAGTAAATATCATAAACCACTTCGAATCTTCAATATAAAT
TTTACAGATAACAGTTTATGTACAGCTTCAACTGATAAGCAGTTATGTCATTTAGCTGCT
GGCTTTGAGGATTCAACAATAGTTTTATGGTCCATTAATGGTTTCGAAAATTGTGGACAC
AAGCCATTTCAAACCTTTGATGACCGACTTTGTCAGTGGTCTATAAATAACTGCAATCGA
ACGTTAACAGATGATTTAAGTGATTACGATACAAGTGATGAAGAGATTGAAAGAAATTTA
AAGCATTTGATGGGAATGAATGAACAAGAAGATGACAATAATGATGATGACAGTAATTTA
TTTTCCACAAGTGGTCTAAATAGAATATCGAGAAAACGAAAAATTAGAAATAAATATCGA
AGAACCATAAGTATTAGAGATCAATGGAAAGAGTATGCATCAAAAAGTTCTAGTGAAAAT
AATTTTTCTGTCGATTCTCAAAGCATTATTTTAAGAGGACATAGAAATTCAGTAACCGAC
TTGATGTTTGGAAAAAATGATACATTACTAAGTGTTTCGAGAGACAAGACTTTTCGTTTA
TGGAAAGCTGATTCATATACTTGTGCATCAGTGTATCGTGGACACGAATATCCGATTTGG
TGTGTTGATGAAAGTTCAAATGGATGTTATGCGATAACAGGATCACGCGATACAACTGCA
CGTCTGTGGTCTTATGAAAGAAAATTTCCGTTGAGAGTATATACAGGTCACACTCAGGAT
GTAGATTGTATAGCTTTTCACCCAAATGGAAATTATTTTGCAACTGGCTCTACTGACACT
TCAATTCGTATGTGGTGCGTTACTTCAGGAAAATTATTAAGAATTTTTACAGAAAGTCAT
TTACCAATAAACACAATAAGTTTTAGTCCAGATGGAAAACTTTTAGCTGCTGCTGGTGAT
GAAAGCAAAATTCGCATATTTGATCTTGCGGCAGGACAGCAACTTTTTGATTTAAAAAAT
CATACTGCATCAATAAAGTCATTATGCTGGAGTTCTAATAGTAAAAAGTTACTCTCAGGT
TGTGCTGACGGTTCGTTTTTTGTTTGGAATGTTAACACACTTAGTCTAAATCAATCTTCC
AATAATAATAATAATATGAACACTAATACAAAAGACTCAAAATCTTCATCCTCCTCCACA
TCAATGCCAATGCCAACAAGTTCAAAATTTTCAGATTTATCCAGAGCAACAATGTTATCA
TCGTCTAACACAAGTTCAACATCGCTTCTTCAATCTAATTCTACCGGCTGTAAACGAATC
GTAAAAGTATTTTTTAATGGTCCAGACGAATTAGTGCATGCAATCGGAAATGATTGA

>g3579.t1 Gene=g3579 Length=838
MNKNSIKSTLNNYLKQKNYPINERFRKSDLVLTQSKEDFLMDLKINSEISRTNSFTFSNI
SSLNGSYGSQSLVEQQISKLIKFVQCQRNSIVRKELELLLPPIVCHLYIEMLKGKEWKPA
NDFLRKYACLVGSVQEVSQQKNNGSDPSFLAPHPIHFLPQSHTSHLHQNIYNRFIPSTSS
TSKHQSPCLNQLSSIDEQKLNMFRELISNLSSLRRLEDVKDNKLICSFRSCKYKAKIANK
TLFMLNKFLSKHGHVLLIQILHLWFCIDLYDLHDDDSSSSSSSGSSSSSSSSSEMNNFAE
YADSNMLHRNRSHSSSMIKTNSMHDRFNDHDPSYCDTLGKDIKFNANKSALNQTCDDNSD
FFDGGGNSHSNSNLKMKRLQECLHRVDSKYHKPLRIFNINFTDNSLCTASTDKQLCHLAA
GFEDSTIVLWSINGFENCGHKPFQTFDDRLCQWSINNCNRTLTDDLSDYDTSDEEIERNL
KHLMGMNEQEDDNNDDDSNLFSTSGLNRISRKRKIRNKYRRTISIRDQWKEYASKSSSEN
NFSVDSQSIILRGHRNSVTDLMFGKNDTLLSVSRDKTFRLWKADSYTCASVYRGHEYPIW
CVDESSNGCYAITGSRDTTARLWSYERKFPLRVYTGHTQDVDCIAFHPNGNYFATGSTDT
SIRMWCVTSGKLLRIFTESHLPINTISFSPDGKLLAAAGDESKIRIFDLAAGQQLFDLKN
HTASIKSLCWSSNSKKLLSGCADGSFFVWNVNTLSLNQSSNNNNNMNTNTKDSKSSSSST
SMPMPTSSKFSDLSRATMLSSSNTSSTSLLQSNSTGCKRIVKVFFNGPDELVHAIGND

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g3579.t1 CDD cd00200 WD40 550 750 8.83755E-49
16 g3579.t1 Gene3D G3DSA:1.25.40.500 - 49 143 1.2E-5
17 g3579.t1 Gene3D G3DSA:1.25.40.500 - 162 271 5.6E-8
15 g3579.t1 Gene3D G3DSA:2.130.10.10 - 540 680 3.8E-40
14 g3579.t1 Gene3D G3DSA:2.130.10.10 - 681 830 9.3E-22
25 g3579.t1 MobiDBLite mobidb-lite consensus disorder prediction 760 793 -
8 g3579.t1 PANTHER PTHR19879:SF5 LD16387P 6 271 1.1E-173
11 g3579.t1 PANTHER PTHR19879 TRANSCRIPTION INITIATION FACTOR TFIID 6 271 1.1E-173
6 g3579.t1 PANTHER PTHR19879:SF5 LD16387P 372 497 1.1E-173
9 g3579.t1 PANTHER PTHR19879 TRANSCRIPTION INITIATION FACTOR TFIID 372 497 1.1E-173
7 g3579.t1 PANTHER PTHR19879:SF5 LD16387P 543 772 1.1E-173
10 g3579.t1 PANTHER PTHR19879 TRANSCRIPTION INITIATION FACTOR TFIID 543 772 1.1E-173
1 g3579.t1 Pfam PF04494 WD40 associated region in TFIID subunit, NTD2 domain 184 261 7.9E-6
2 g3579.t1 Pfam PF00400 WD domain, G-beta repeat 549 582 9.6E-4
3 g3579.t1 Pfam PF00400 WD domain, G-beta repeat 588 624 7.5E-6
4 g3579.t1 Pfam PF00400 WD domain, G-beta repeat 630 665 1.7E-9
5 g3579.t1 Pfam PF12894 Anaphase-promoting complex subunit 4 WD40 domain 687 758 1.1E-5
26 g3579.t1 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 551 759 47.747
29 g3579.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 551 591 11.344
28 g3579.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 592 633 10.843
30 g3579.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 634 675 16.858
27 g3579.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 676 717 10.041
31 g3579.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 718 759 13.282
20 g3579.t1 SMART SM00320 WD40_4 392 431 37.0
21 g3579.t1 SMART SM00320 WD40_4 544 582 5.9E-4
24 g3579.t1 SMART SM00320 WD40_4 585 624 2.0E-6
23 g3579.t1 SMART SM00320 WD40_4 627 666 3.9E-10
19 g3579.t1 SMART SM00320 WD40_4 669 708 3.8E-6
22 g3579.t1 SMART SM00320 WD40_4 711 750 1.7E-7
13 g3579.t1 SUPERFAMILY SSF160897 Taf5 N-terminal domain-like 68 271 1.7E-21
12 g3579.t1 SUPERFAMILY SSF50978 WD40 repeat-like 413 760 1.19E-56

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