Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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_4 g17217 g17217.t9 TTS g17217.t9 12850741 12850741
chr_4 g17217 g17217.t9 isoform g17217.t9 12850854 12851772
chr_4 g17217 g17217.t9 exon g17217.t9.exon1 12850854 12851653
chr_4 g17217 g17217.t9 cds g17217.t9.CDS1 12850854 12851555
chr_4 g17217 g17217.t9 exon g17217.t9.exon2 12851716 12851772
chr_4 g17217 g17217.t9 TSS g17217.t9 12851771 12851771

Sequences

>g17217.t9 Gene=g17217 Length=857
AATTGAACTGGAATAATCGACAAATAAATTGAGTGACAAATTTTTTAAAAAAATTTGCAG
AGTGACGAATAAACCAAATAAAAGTAAAAGAATTTTACTTTGAAGAAAATTTCACAAAAA
TGGACGCTCAGTATGTAAAAAATTATGACTAATGCATGACTAATGATCAAAAAAAAATTT
TCAGAGAAAATAATAATGATGTTAAAACAACTGTTGATGAAGATATTGTTACGGAAGAGC
AAAATGACTCAGGCATTGGCACTGATGCATCTTCAGTGTCTTCTGACGCGAGCTACCAAA
CTGTTTTGAGCAACACTTCTATTTCTTTAGATTCGATGAATATAAATAGCTCAGAAGAAG
ATGAAAAGAATGCTGATGCACAACTGGATTTTGCTCTAGAAGACACTCTTGAATTAATAA
TTGAACGAGATGATAAAGAAATTCCATTAAACATGGACAAAACTGCGACAATTTCTGATG
TTCTTAATCAAGCATCTTTAATTGGAAATTTTACAAGTGATGATTTTGATTTGTCAATTG
ATAGCAAAACTTTACCACGAACAATCAGTCTTCGTGATGCAGCCATCACTTATGGAAGTC
GCATTCGTTTAGTTGAGCGTCCATTTCAAATTTTTATTCGTCGTGTTGATGGTCGCATTT
TGACTTTGGATGTCACTTCCTCAAACACTATTGAATATTTGAAAGAACGATTCAATTACA
CTGATCAAGTTCCAATTCATCAACAAAGATTGTTGTATCAAAGTCAAGAATTGGAAAATT
CACGTACTTTGCAATTTTATAAAATTCGCAAAAATGCAACACTTGAAATGGTCTACAGAC
TTCGTGGTGGATTTTAA

>g17217.t9 Gene=g17217 Length=233
MTNDQKKIFRENNNDVKTTVDEDIVTEEQNDSGIGTDASSVSSDASYQTVLSNTSISLDS
MNINSSEEDEKNADAQLDFALEDTLELIIERDDKEIPLNMDKTATISDVLNQASLIGNFT
SDDFDLSIDSKTLPRTISLRDAAITYGSRIRLVERPFQIFIRRVDGRILTLDVTSSNTIE
YLKERFNYTDQVPIHQQRLLYQSQELENSRTLQFYKIRKNATLEMVYRLRGGF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g17217.t9 Gene3D G3DSA:3.10.20.90 - 154 233 1.5E-22
12 g17217.t9 MobiDBLite mobidb-lite consensus disorder prediction 1 24 -
13 g17217.t9 MobiDBLite mobidb-lite consensus disorder prediction 1 41 -
2 g17217.t9 PANTHER PTHR10666 UBIQUITIN 53 232 2.4E-18
3 g17217.t9 PANTHER PTHR10666:SF350 UBIQUITIN 13 53 232 2.4E-18
6 g17217.t9 PRINTS PR00348 Ubiquitin signature 167 187 8.7E-12
4 g17217.t9 PRINTS PR00348 Ubiquitin signature 188 208 8.7E-12
5 g17217.t9 PRINTS PR00348 Ubiquitin signature 209 230 8.7E-12
1 g17217.t9 Pfam PF00240 Ubiquitin family 159 230 9.5E-16
14 g17217.t9 ProSiteProfiles PS50053 Ubiquitin domain profile. 157 232 19.782
11 g17217.t9 SMART SM00213 ubq_7 85 155 18.0
10 g17217.t9 SMART SM00213 ubq_7 157 228 2.2E-14
8 g17217.t9 SUPERFAMILY SSF54236 Ubiquitin-like 92 155 9.74E-6
7 g17217.t9 SUPERFAMILY SSF54236 Ubiquitin-like 155 232 1.22E-19

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