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.t7 TTS g11427.t7 16163284 16163284
chr_1 g11427 g11427.t7 isoform g11427.t7 16163394 16164638
chr_1 g11427 g11427.t7 exon g11427.t7.exon1 16163394 16163552
chr_1 g11427 g11427.t7 cds g11427.t7.CDS1 16163394 16163552
chr_1 g11427 g11427.t7 exon g11427.t7.exon2 16163616 16164150
chr_1 g11427 g11427.t7 cds g11427.t7.CDS2 16163616 16164092
chr_1 g11427 g11427.t7 exon g11427.t7.exon3 16164207 16164361
chr_1 g11427 g11427.t7 exon g11427.t7.exon4 16164426 16164571
chr_1 g11427 g11427.t7 exon g11427.t7.exon5 16164634 16164638
chr_1 g11427 g11427.t7 TSS g11427.t7 16165634 16165634

Sequences

>g11427.t7 Gene=g11427 Length=1000
TCTAATTGAAGATGGTATTGAAGACACAGTCTTGGGATCTCTACAATTTGTAAGTAATTA
CAGAGAGCGATATGGTGTTGGTCCAACTTTTTTCGAAGGTAGCTTAGAAGATGCTCTTAA
AACAGCTTATACAGCAAAATCGGCCAAGGATCGAAAATTACTTGCAATTTATTTGCATCA
TGATAATAGCGTACTATCAAATGTATTTTGTGGACAGTTGTTGGGAAACGAAAATATCAT
AAAATTATTGAATGAAAATTACATTTTATTTGGCTGGGATCTTACATTCGAATCAAATAA
AAATTTATTTTTATCGTCTTTAACTGCTTCAGCTACAGACTCGGCGTCTCTTCAAATTCG
TAATATGGCTATTAATCAATTTCCAATTATATTAATAATCCGAAAATTTAGAGGGATGTG
TGAAATAGCTGATATTATTCACGGAAATATTAATCGTGATGAACTGTATATTCATTTAAT
GATGAATTCAGATGCGTTTAACGAACAAATGAAAATAGATATTCGTGAAGAAAATGAGCG
TGCTGCCAGAGAAAGTTTACTGCTAGAGCAGCAGCAAGCATATCAAGAAAGTTTGCTAGC
TGATAGAGCAAAAGAAGAGGAACGATTAAGACTTGAAAAAATGATGGAGAATGAACGTCA
AAAACAAGAATCTGAATTAGCTGATAAACTAGCAAAAAAAGAAGCTGATAGAAGAGATGC
AGAAAATTCATTACCACCTGAGCCTACAAATGATTGCACTCAACAAATTACAAAGATTCG
TTTTAGAAAACCAACTGGTGATTTTATTGAACGAAAATTTACAGTTGACACTCAATTAAA
AGTTTTATTAAACTTTTCAAAAGCTAATGGATTTTCTCCAGAAGACTTTAAAATTATCTC
AAGTTTTCCCCGACGTGATCTTACAACCATCGATTCAGCAAATACTTTAAAGCAATTAAA
TTTGTATCCACAAGAAACTCTTATATTAGAAGAACGATAA

>g11427.t7 Gene=g11427 Length=211
MAINQFPIILIIRKFRGMCEIADIIHGNINRDELYIHLMMNSDAFNEQMKIDIREENERA
ARESLLLEQQQAYQESLLADRAKEEERLRLEKMMENERQKQESELADKLAKKEADRRDAE
NSLPPEPTNDCTQQITKIRFRKPTGDFIERKFTVDTQLKVLLNFSKANGFSPEDFKIISS
FPRRDLTTIDSANTLKQLNLYPQETLILEER

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g11427.t7 CDD cd01771 UBX_UBXN3A 132 211 1.59665E-33
6 g11427.t7 Coils Coil Coil 83 122 -
5 g11427.t7 Gene3D G3DSA:3.10.20.90 - 128 211 7.5E-28
9 g11427.t7 MobiDBLite mobidb-lite consensus disorder prediction 94 133 -
10 g11427.t7 MobiDBLite mobidb-lite consensus disorder prediction 94 123 -
2 g11427.t7 PANTHER PTHR23322:SF56 FAS-ASSOCIATED FACTOR 1 3 210 9.2E-48
3 g11427.t7 PANTHER PTHR23322 FAS-ASSOCIATED PROTEIN 3 210 9.2E-48
1 g11427.t7 Pfam PF00789 UBX domain 135 210 8.3E-13
11 g11427.t7 ProSiteProfiles PS50033 UBX domain profile. 131 208 17.446
8 g11427.t7 SMART SM00166 ubx_3 127 210 2.5E-10
4 g11427.t7 SUPERFAMILY SSF54236 Ubiquitin-like 98 210 8.01E-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