Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t4 TTS g11427.t4 16163284 16163284
chr_1 g11427 g11427.t4 isoform g11427.t4 16163394 16164426
chr_1 g11427 g11427.t4 exon g11427.t4.exon1 16163394 16163552
chr_1 g11427 g11427.t4 cds g11427.t4.CDS1 16163394 16163552
chr_1 g11427 g11427.t4 exon g11427.t4.exon2 16163616 16164150
chr_1 g11427 g11427.t4 cds g11427.t4.CDS2 16163616 16164041
chr_1 g11427 g11427.t4 exon g11427.t4.exon3 16164207 16164426
chr_1 g11427 g11427.t4 TSS g11427.t4 NA NA

Sequences

>g11427.t4 Gene=g11427 Length=914
TGTAAGTTTTAACTAATATTATAAATAAATACTCATAAAAAATTTCTAAATTAATTTCTT
TATAGCGAAAATTACTTGCAATTTATTTGCATCATGATAATAGCGTACTATCAAATGTAT
TTTGTGGACAGTTGTTGGGAAACGAAAATATCATAAAATTATTGAATGAAAATTACATTT
TATTTGGCTGGGATCTTACATTCGAATCAAATAAAAATTTATTTTTATCGTCTTTAACTG
CTTCAGCTACAGACTCGGCGTCTCTTCAAATTCGTAATATGGCTATTAATCAATTTCCAA
TTATATTAATAATCCGAAAATTTAGAGGGATGTGTGAAATAGCTGATATTATTCACGGAA
ATATTAATCGTGATGAACTGTATATTCATTTAATGATGAATTCAGATGCGTTTAACGAAC
AAATGAAAATAGATATTCGTGAAGAAAATGAGCGTGCTGCCAGAGAAAGTTTACTGCTAG
AGCAGCAGCAAGCATATCAAGAAAGTTTGCTAGCTGATAGAGCAAAAGAAGAGGAACGAT
TAAGACTTGAAAAAATGATGGAGAATGAACGTCAAAAACAAGAATCTGAATTAGCTGATA
AACTAGCAAAAAAAGAAGCTGATAGAAGAGATGCAGAAAATTCATTACCACCTGAGCCTA
CAAATGATTGCACTCAACAAATTACAAAGATTCGTTTTAGAAAACCAACTGGTGATTTTA
TTGAACGAAAATTTACAGTTGACACTCAATTAAAAGTTTTATTAAACTTTTCAAAAGCTA
ATGGATTTTCTCCAGAAGACTTTAAAATTATCTCAAGTTTTCCCCGACGTGATCTTACAA
CCATCGATTCAGCAAATACTTTAAAGCAATTAAATTTGTATCCACAAGAAACTCTTATAT
TAGAAGAACGATAA

>g11427.t4 Gene=g11427 Length=194
MCEIADIIHGNINRDELYIHLMMNSDAFNEQMKIDIREENERAARESLLLEQQQAYQESL
LADRAKEEERLRLEKMMENERQKQESELADKLAKKEADRRDAENSLPPEPTNDCTQQITK
IRFRKPTGDFIERKFTVDTQLKVLLNFSKANGFSPEDFKIISSFPRRDLTTIDSANTLKQ
LNLYPQETLILEER

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g11427.t4 CDD cd01771 UBX_UBXN3A 115 194 9.90851E-34
6 g11427.t4 Coils Coil Coil 66 105 -
5 g11427.t4 Gene3D G3DSA:3.10.20.90 - 111 194 6.2E-28
9 g11427.t4 MobiDBLite mobidb-lite consensus disorder prediction 77 106 -
10 g11427.t4 MobiDBLite mobidb-lite consensus disorder prediction 77 116 -
2 g11427.t4 PANTHER PTHR23322:SF56 FAS-ASSOCIATED FACTOR 1 3 193 1.3E-41
3 g11427.t4 PANTHER PTHR23322 FAS-ASSOCIATED PROTEIN 3 193 1.3E-41
1 g11427.t4 Pfam PF00789 UBX domain 118 193 6.9E-13
11 g11427.t4 ProSiteProfiles PS50033 UBX domain profile. 114 191 17.446
8 g11427.t4 SMART SM00166 ubx_3 110 193 2.5E-10
4 g11427.t4 SUPERFAMILY SSF54236 Ubiquitin-like 81 193 7.49E-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

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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