Gene loci information

Transcript annotation

  • This transcript has been annotated as FAS-associated factor 1.

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_1 g11427 g11427.t8 TTS g11427.t8 16163284 16163284
chr_1 g11427 g11427.t8 isoform g11427.t8 16163394 16165898
chr_1 g11427 g11427.t8 exon g11427.t8.exon1 16163394 16163552
chr_1 g11427 g11427.t8 cds g11427.t8.CDS1 16163394 16163552
chr_1 g11427 g11427.t8 exon g11427.t8.exon2 16163616 16164150
chr_1 g11427 g11427.t8 cds g11427.t8.CDS2 16163616 16164150
chr_1 g11427 g11427.t8 exon g11427.t8.exon3 16164207 16164361
chr_1 g11427 g11427.t8 cds g11427.t8.CDS3 16164207 16164361
chr_1 g11427 g11427.t8 exon g11427.t8.exon4 16164426 16164571
chr_1 g11427 g11427.t8 cds g11427.t8.CDS4 16164426 16164571
chr_1 g11427 g11427.t8 exon g11427.t8.exon5 16164634 16165065
chr_1 g11427 g11427.t8 cds g11427.t8.CDS5 16164634 16165065
chr_1 g11427 g11427.t8 exon g11427.t8.exon6 16165116 16165295
chr_1 g11427 g11427.t8 cds g11427.t8.CDS6 16165116 16165295
chr_1 g11427 g11427.t8 exon g11427.t8.exon7 16165362 16165454
chr_1 g11427 g11427.t8 cds g11427.t8.CDS7 16165362 16165454
chr_1 g11427 g11427.t8 exon g11427.t8.exon8 16165544 16165898
chr_1 g11427 g11427.t8 cds g11427.t8.CDS8 16165544 16165610
chr_1 g11427 g11427.t8 TSS g11427.t8 16166022 16166022

Sequences

>g11427.t8 Gene=g11427 Length=2055
ATGGAGGAAGTTTTAAATAAAGAGGAAATTCTTGCAAACTTTCAGGTTTATTAGAATCTT
TCTTGTGCATTAATTTTTCATTTCAAAAATCACATTACTTTTTTAGCAAATCACTGCAAT
TGAGGATATTGGAATAGCTCTAAGTCATTTAGAGTCAACAGGATGGGATTTAGAGGTATA
GAAAACTCGTGAATTTTCTAGAAATATGATTCATAAAAAAATTTTTTTAATCATTTTTTT
TTTCATTAAAAATCCTCCATTTAGACTGCAGTGAGGATTGCTATACTGATGGATGGAAAT
GAAAATGAAAGTATTTCTATTGTGGATAATGATCAAAGTGTTATAGAAGTAGCAGGTCCT
TCAACTTCTACGCAGTCAGAATTGACATTCAACATTCGCTTTAAAAAGGATTTGATTACA
ATAAAACTTTCTGAGTTACAGACTGTAGGAGAATTGAAGCAGCTAATAATGAAGAAAACA
TCTGTTCCCGTGTGTCGACAAAATCTGAAAATGAATAATATACCTATTAGAAGTATGCAG
TCTGATTCAACCAAATTAAAAGCTCTTAATTTCAACTCAAATGACATCAATTTAGAATTA
ACCGATATAAGTAATGATGGTGAATTAGGTATTGCTGCTGATATTATTCCAATTTCACCT
ACATCAAACTCGAATGGAAATTATCAATTAAGAATATATTTAACAAATGAAAATCGATAT
TTGAATTTAAATTTTGCTCCATCAAAAACATTACTTGAAATCAAGAATGATGTGTTTGCA
GTCTTAAAAACCCCAGTTCGATTTCAAGTTTGGGAAGGATGGCCGTCAAATGCAACAAAT
GATTCTAAACTAAGCGATTTAGACATCGATCACATTCATTGTCTTCAATTAACATGTACT
GGTAGCGATAGTGCAAGTGCAAGTAGTAGCTCAATCAGAACAATAGGAGAAACTTTAGAA
ATAGATTCTGATTCTGACTCGATTGAATTTGAGGATGCAACAGCCGATGAAGACATGTTT
ACAGAAGAAGGCGTTCAACCTAACCGATTAAAACATCTAATTGAAGATGGTATTGAAGAC
ACAGTCTTGGGATCTCTACAATTTGTAAGTAATTACAGAGAGCGATATGGTGTTGGTCCA
ACTTTTTTCGAAGGTAGCTTAGAAGATGCTCTTAAAACAGCTTATACAGCAAAATCGGCC
AAGGATCGAAAATTACTTGCAATTTATTTGCATCATGATAATAGCGTACTATCAAATGTA
TTTTGTGGACAGTTGTTGGGAAACGAAAATATCATAAAATTATTGAATGAAAATTACATT
TTATTTGGCTGGGATCTTACATTCGAATCAAATAAAAATTTATTTTTATCGTCTTTAACT
GCTTCAGCTACAGACTCGGCGTCTCTTCAAATTCGTAATATGGCTATTAATCAATTTCCA
ATTATATTAATAATCCGAAAATTTAGAGGGATGTGTGAAATAGCTGATATTATTCACGGA
AATATTAATCGTGATGAACTGTATATTCATTTAATGATGAATTCAGATGCGTTTAACGAA
CAAATGAAAATAGATATTCGTGAAGAAAATGAGCGTGCTGCCAGAGAAAGTTTACTGCTA
GAGCAGCAGCAAGCATATCAAGAAAGTTTGCTAGCTGATAGAGCAAAAGAAGAGGAACGA
TTAAGACTTGAAAAAATGATGGAGAATGAACGTCAAAAACAAGAATCTGAATTAGCTGAT
AAACTAGCAAAAAAAGAAGCTGATAGAAGAGATGCAGAAAATTCATTACCACCTGAGCCT
ACAAATGATTGCACTCAACAAATTACAAAGATTCGTTTTAGAAAACCAACTGGTGATTTT
ATTGAACGAAAATTTACAGTTGACACTCAATTAAAAGTTTTATTAAACTTTTCAAAAGCT
AATGGATTTTCTCCAGAAGACTTTAAAATTATCTCAAGTTTTCCCCGACGTGATCTTACA
ACCATCGATTCAGCAAATACTTTAAAGCAATTAAATTTGTATCCACAAGAAACTCTTATA
TTAGAAGAACGATAA

>g11427.t8 Gene=g11427 Length=588
MDGNENESISIVDNDQSVIEVAGPSTSTQSELTFNIRFKKDLITIKLSELQTVGELKQLI
MKKTSVPVCRQNLKMNNIPIRSMQSDSTKLKALNFNSNDINLELTDISNDGELGIAADII
PISPTSNSNGNYQLRIYLTNENRYLNLNFAPSKTLLEIKNDVFAVLKTPVRFQVWEGWPS
NATNDSKLSDLDIDHIHCLQLTCTGSDSASASSSSIRTIGETLEIDSDSDSIEFEDATAD
EDMFTEEGVQPNRLKHLIEDGIEDTVLGSLQFVSNYRERYGVGPTFFEGSLEDALKTAYT
AKSAKDRKLLAIYLHHDNSVLSNVFCGQLLGNENIIKLLNENYILFGWDLTFESNKNLFL
SSLTASATDSASLQIRNMAINQFPIILIIRKFRGMCEIADIIHGNINRDELYIHLMMNSD
AFNEQMKIDIREENERAARESLLLEQQQAYQESLLADRAKEEERLRLEKMMENERQKQES
ELADKLAKKEADRRDAENSLPPEPTNDCTQQITKIRFRKPTGDFIERKFTVDTQLKVLLN
FSKANGFSPEDFKIISSFPRRDLTTIDSANTLKQLNLYPQETLILEER

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g11427.t8 CDD cd01771 UBX_UBXN3A 509 588 1.11351E-32
12 g11427.t8 Coils Coil Coil 460 499 -
8 g11427.t8 Gene3D G3DSA:3.10.20.90 - 31 104 1.0E-12
9 g11427.t8 Gene3D G3DSA:3.10.20.90 - 133 201 4.2E-7
11 g11427.t8 Gene3D G3DSA:3.40.30.10 Glutaredoxin 257 430 5.5E-45
10 g11427.t8 Gene3D G3DSA:3.10.20.90 - 506 588 5.0E-27
16 g11427.t8 MobiDBLite mobidb-lite consensus disorder prediction 471 500 -
17 g11427.t8 MobiDBLite mobidb-lite consensus disorder prediction 471 510 -
2 g11427.t8 PANTHER PTHR23322:SF56 FAS-ASSOCIATED FACTOR 1 81 587 1.4E-108
3 g11427.t8 PANTHER PTHR23322 FAS-ASSOCIATED PROTEIN 81 587 1.4E-108
1 g11427.t8 Pfam PF00789 UBX domain 512 587 5.0E-12
18 g11427.t8 ProSiteProfiles PS50033 UBX domain profile. 508 585 17.446
15 g11427.t8 SMART SM00594 45neu3 271 416 1.8E-41
14 g11427.t8 SMART SM00166 ubx_3 504 587 2.5E-10
7 g11427.t8 SUPERFAMILY SSF54236 Ubiquitin-like 24 98 1.48E-8
6 g11427.t8 SUPERFAMILY SSF54236 Ubiquitin-like 126 202 4.62E-5
4 g11427.t8 SUPERFAMILY SSF52833 Thioredoxin-like 284 394 3.58E-5
5 g11427.t8 SUPERFAMILY SSF54236 Ubiquitin-like 476 587 2.67E-22

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