Gene loci information

Transcript annotation

  • This transcript has been annotated as E3 SUMO-protein ligase PIAS1.

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_3 g3881 g3881.t4 TSS g3881.t4 28604708 28604708
chr_3 g3881 g3881.t4 isoform g3881.t4 28604776 28606316
chr_3 g3881 g3881.t4 exon g3881.t4.exon1 28604776 28604878
chr_3 g3881 g3881.t4 cds g3881.t4.CDS1 28604816 28604878
chr_3 g3881 g3881.t4 exon g3881.t4.exon2 28604942 28605259
chr_3 g3881 g3881.t4 cds g3881.t4.CDS2 28604942 28605259
chr_3 g3881 g3881.t4 exon g3881.t4.exon3 28605316 28605424
chr_3 g3881 g3881.t4 cds g3881.t4.CDS3 28605316 28605424
chr_3 g3881 g3881.t4 exon g3881.t4.exon4 28605477 28605554
chr_3 g3881 g3881.t4 cds g3881.t4.CDS4 28605477 28605554
chr_3 g3881 g3881.t4 exon g3881.t4.exon5 28605616 28605784
chr_3 g3881 g3881.t4 cds g3881.t4.CDS5 28605616 28605784
chr_3 g3881 g3881.t4 exon g3881.t4.exon6 28605843 28606165
chr_3 g3881 g3881.t4 cds g3881.t4.CDS6 28605843 28606165
chr_3 g3881 g3881.t4 exon g3881.t4.exon7 28606237 28606316
chr_3 g3881 g3881.t4 cds g3881.t4.CDS7 28606237 28606316
chr_3 g3881 g3881.t4 TTS g3881.t4 28606435 28606435

Sequences

>g3881.t4 Gene=g3881 Length=1180
AATTACAAACGAACGCGAACCATTAAAATTTCCAAAAGTCATGCCAAACAATATATCTAA
ACCATATGAACTAAAAGTGAGTGATACAAACAAAACAATTCAGTGTTTACCAACGGCTTC
CAATATTGTTCAACTACAAATTAAAAATCTACCTTTTTATGATAAATTAGCAGTGCTATT
AAAACCAATTCATTTAAATCCTAATCAAACCACATCAACCCAAAAAGCTTTAATTGATTT
AAGTTTGAAAATTGAACATATTCAAATTATTCAAAAATACCGCCGCAATGATTCTAACGG
AACAGTTTACGATGCACAAGTGATACTGAGATTCTGTCTTTTTGATACTTCTACTACACA
AAACGATAATTTCCCTTTAAATCTCGACCTATTTGTTAATGGTTGTCCTTGTGAACTTCC
CAATTATTTACCATGTCGACCTGGCGATACTCCTAGACGCCCACCACAGCCCATTAATAT
AACTAAATATCTCAAAATCAATCCTGAATCATCAAATCAACTTATAAATAAAATTATAGT
GCATTGGTCTCAAGAACCTTCAAAAAAGTATATGTTAAGTGCATTTCTAGTGCATAAACG
AACTTCTGCTGAACTATTTGATCGGATCAAGTTAAGAGATGTAAAGCCACCAAATTACAC
AAGTACACTTATTAAAGAGAAGTTGAAAGATGATGCAGATAATGAAATTGCAACCACAAT
GTTGAGAGCTTCATTGATTTGTCCATTAGCTAAAACAAGAATGAAAACACCTTTTCGCTC
GTTAAGTTGTAAGCATGTTCAATGCTTTGATGGACTTTCATACTTGCAAATGAATGAACG
CCATCCAAAATGGACTTGTCCAGTGTGCAATAAGGAAATTACATATGAAAGTTTAGTAAT
CGATGGATATTTTCTTAGTGTTATCAAATCTATCAATGACAATGAAACAACAGAAATTCA
ATTGCATTCAAATGGATCTTGGTCGAAATTTGAAATGGAAAAAAACAACATAGTGAAGAA
AAAAGCAGCATCAAAAAATATTGATGTAATTGATGTTTGCGATAGTGACGAAGAAGATGC
ACAAAACAATAATCAACCTTGTTCATCAAATTCTGAGAGAAAGCTACTTCAACCATGTCG
TGACGGAGATTATATTGATCTTACTTTAGACGACGATTGA

>g3881.t4 Gene=g3881 Length=379
MPNNISKPYELKVSDTNKTIQCLPTASNIVQLQIKNLPFYDKLAVLLKPIHLNPNQTTST
QKALIDLSLKIEHIQIIQKYRRNDSNGTVYDAQVILRFCLFDTSTTQNDNFPLNLDLFVN
GCPCELPNYLPCRPGDTPRRPPQPINITKYLKINPESSNQLINKIIVHWSQEPSKKYMLS
AFLVHKRTSAELFDRIKLRDVKPPNYTSTLIKEKLKDDADNEIATTMLRASLICPLAKTR
MKTPFRSLSCKHVQCFDGLSYLQMNERHPKWTCPVCNKEITYESLVIDGYFLSVIKSIND
NETTEIQLHSNGSWSKFEMEKNNIVKKKAASKNIDVIDVCDSDEEDAQNNNQPCSSNSER
KLLQPCRDGDYIDLTLDDD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3881.t4 Gene3D G3DSA:2.60.120.780 - 31 186 0.0000000
7 g3881.t4 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 188 316 0.0000000
3 g3881.t4 PANTHER PTHR10782 ZINC FINGER MIZ DOMAIN-CONTAINING PROTEIN 32 359 0.0000000
4 g3881.t4 PANTHER PTHR10782:SF11 E3 SUMO-PROTEIN LIGASE PIAS1 32 359 0.0000000
2 g3881.t4 Pfam PF14324 PINIT domain 32 184 0.0000000
1 g3881.t4 Pfam PF02891 MIZ/SP-RING zinc finger 231 278 0.0000000
9 g3881.t4 ProSiteProfiles PS51466 PINIT domain profile. 21 187 28.3080000
8 g3881.t4 ProSiteProfiles PS51044 Zinc finger SP-RING-type profile. 219 296 41.2430000
5 g3881.t4 SUPERFAMILY SSF57850 RING/U-box 229 297 0.0000002

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:0008270 zinc ion binding MF
GO:0019789 SUMO transferase activity 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. There were no conditions that were differentially expressed