Gene loci information

Transcript annotation

  • This transcript has been annotated as IST1-like protein.

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_2 g6212 g6212.t10 TTS g6212.t10 15278845 15278845
chr_2 g6212 g6212.t10 isoform g6212.t10 15279734 15280878
chr_2 g6212 g6212.t10 exon g6212.t10.exon1 15279734 15279817
chr_2 g6212 g6212.t10 cds g6212.t10.CDS1 15279734 15279817
chr_2 g6212 g6212.t10 exon g6212.t10.exon2 15279887 15280567
chr_2 g6212 g6212.t10 cds g6212.t10.CDS2 15279887 15280567
chr_2 g6212 g6212.t10 exon g6212.t10.exon3 15280634 15280698
chr_2 g6212 g6212.t10 cds g6212.t10.CDS3 15280634 15280698
chr_2 g6212 g6212.t10 exon g6212.t10.exon4 15280755 15280878
chr_2 g6212 g6212.t10 cds g6212.t10.CDS4 15280755 15280878
chr_2 g6212 g6212.t10 TSS g6212.t10 15280963 15280963

Sequences

>g6212.t10 Gene=g6212 Length=954
ATGTTTTCTAGTGGACCTAATTACAATAAACTTAAAACCAATCTTAGGTTGGCAGTGAAT
CGATTAAAGTTACTTGAGAAAAAGAAAACAGAAACAAATCAAAAAGCAAGAAAGGAAATT
GCTGATTTTATTGAGATAAACAAACCAGATAGAGCAAGGATTCGAGTTGAAAGTATAATA
AGGGAAGACTACCTTGTAGAAGCAATGGAGATTTTAGAAATGTTTTGCGATTTAATTCTT
GCAAGATTTGGATTGATAACGCAGTTAAAAGAACTTGATGAGGGAATTTCGGAAGCAGTT
GCAAGCATAATTTGGGTTGCACCTCGACTCATTTCTGATGTTCCTGAACTTAAAATCATT
TCTGATCAGTTAACTTTGAAGTATGGCAAGGCTTATGCAGATGCATGTAGAGCTGCAGTT
CCACCATCAAATGTTTCAGAGAAATTGCAGCATAAAATGTCGATTCAGGCTCCACCAAAA
TTATTGGTTGAAAAGTATCTAATTGAGATTGCAAAAATCTTCAATATCGATTATGAGCCT
GATCAGAGTATAATGAAAGAAGATACAAGACCAGAAGGCTTTTTGATTGATTTTGGAAAC
AGTAACAATTTGGATGGCAACAATCCAGGAAATTTCCCACCGCAACCAGGTTTTTCGGGA
TATCCTTTGCCTCCACAACTTCCAATTTTGCCCGGTCCTCCACCATTTAATTATCCAGCT
CCATCAAACTCATTCACAGGACCAAGTGCTCCTTTTAACTATAATATACCACCTATGCCT
CAATCGCAAATGCCACCACAATTACCACAACAACCAAATGCATCACATGGACAATCTGAA
AAGAAAGATTTGAATGTCAACTTTTTGAATGATCAAAAAAGGCATGAATCTATGCCGCCA
CCATATTCGGAAATTAACTCATCAACAACAATAAGTCCGGAAGATAATGCACAG

>g6212.t10 Gene=g6212 Length=318
MFSSGPNYNKLKTNLRLAVNRLKLLEKKKTETNQKARKEIADFIEINKPDRARIRVESII
REDYLVEAMEILEMFCDLILARFGLITQLKELDEGISEAVASIIWVAPRLISDVPELKII
SDQLTLKYGKAYADACRAAVPPSNVSEKLQHKMSIQAPPKLLVEKYLIEIAKIFNIDYEP
DQSIMKEDTRPEGFLIDFGNSNNLDGNNPGNFPPQPGFSGYPLPPQLPILPGPPPFNYPA
PSNSFTGPSAPFNYNIPPMPQSQMPPQLPQQPNASHGQSEKKDLNVNFLNDQKRHESMPP
PYSEINSSTTISPEDNAQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g6212.t10 Coils Coil Coil 8 42 -
7 g6212.t10 Gene3D G3DSA:1.20.1260.60 - 1 190 1.1E-66
6 g6212.t10 MobiDBLite mobidb-lite consensus disorder prediction 256 318 -
4 g6212.t10 MobiDBLite mobidb-lite consensus disorder prediction 268 285 -
5 g6212.t10 MobiDBLite mobidb-lite consensus disorder prediction 301 318 -
2 g6212.t10 PANTHER PTHR12161:SF56 IST1 HOMOLOG 5 265 2.5E-79
3 g6212.t10 PANTHER PTHR12161 IST1 FAMILY MEMBER 5 265 2.5E-79
1 g6212.t10 Pfam PF03398 Regulator of Vps4 activity in the MVB pathway 12 177 3.3E-58

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:0015031 protein transport BP

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