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.t2 isoform g3881.t2 28603503 28606316
chr_3 g3881 g3881.t2 exon g3881.t2.exon1 28603503 28603768
chr_3 g3881 g3881.t2 cds g3881.t2.CDS1 28603503 28603768
chr_3 g3881 g3881.t2 exon g3881.t2.exon2 28604106 28604136
chr_3 g3881 g3881.t2 cds g3881.t2.CDS2 28604106 28604136
chr_3 g3881 g3881.t2 exon g3881.t2.exon3 28604192 28604376
chr_3 g3881 g3881.t2 cds g3881.t2.CDS3 28604192 28604376
chr_3 g3881 g3881.t2 exon g3881.t2.exon4 28604776 28604878
chr_3 g3881 g3881.t2 cds g3881.t2.CDS4 28604776 28604878
chr_3 g3881 g3881.t2 exon g3881.t2.exon5 28604939 28605259
chr_3 g3881 g3881.t2 cds g3881.t2.CDS5 28604939 28605259
chr_3 g3881 g3881.t2 exon g3881.t2.exon6 28605316 28605424
chr_3 g3881 g3881.t2 cds g3881.t2.CDS6 28605316 28605424
chr_3 g3881 g3881.t2 exon g3881.t2.exon7 28605477 28605554
chr_3 g3881 g3881.t2 cds g3881.t2.CDS7 28605477 28605554
chr_3 g3881 g3881.t2 exon g3881.t2.exon8 28605616 28605784
chr_3 g3881 g3881.t2 cds g3881.t2.CDS8 28605616 28605784
chr_3 g3881 g3881.t2 exon g3881.t2.exon9 28605843 28606165
chr_3 g3881 g3881.t2 cds g3881.t2.CDS9 28605843 28606165
chr_3 g3881 g3881.t2 exon g3881.t2.exon10 28606237 28606316
chr_3 g3881 g3881.t2 cds g3881.t2.CDS10 28606237 28606316
chr_3 g3881 g3881.t2 TTS g3881.t2 28606435 28606435
chr_3 g3881 g3881.t2 TSS g3881.t2 NA NA

Sequences

>g3881.t2 Gene=g3881 Length=1665
ATGAAAAATGAAGAAGAAGTTGATTTTGATTCTTGGATGTTAATTTATAAAGGTCTAATT
AAAGAAAAAAAATTTGACATTTGGAATATAACATTAGATGAAGAAGATGAGCTCTTATTA
TCACGAGGTAAATTATTTGGATCAGGATTAGATATCGCACCAACAGCACTTATTGAAAAT
ATATGTATTGAAATAACTGAAGTGGGAGAAGGAGGTAAAATAATAGAAACAAGTTTCTAT
GGATCAGAAAGTGCTGAAGTTAAAAAAGAGGGATCTCAAATTTCTCTGATTATTGAAAGA
ATGCTAACTTTGAAACTTCCACAACTCAAGATAATTTGGAAACAAACTGGACAACCAAAT
TTACATTATAAACAAGAATATCAATCAGCTTTACGTTCAGTCATTGAAGGAACAAATGAT
GAGATATCTGAAGAAAAGAGAAAGAAAATAATTGATGATATTTCATCTATAGATTTATAC
CCAATTACAAACGAACGCGAACCATTAAAATTTCCAAAAGTCATGCCAAACAATATATCT
AAACCATATGAACTAAAAGTGAGTGATACAAACAAAACAATTCAGCAGTGTTTACCAACG
GCTTCCAATATTGTTCAACTACAAATTAAAAATCTACCTTTTTATGATAAATTAGCAGTG
CTATTAAAACCAATTCATTTAAATCCTAATCAAACCACATCAACCCAAAAAGCTTTAATT
GATTTAAGTTTGAAAATTGAACATATTCAAATTATTCAAAAATACCGCCGCAATGATTCT
AACGGAACAGTTTACGATGCACAAGTGATACTGAGATTCTGTCTTTTTGATACTTCTACT
ACACAAAACGATAATTTCCCTTTAAATCTCGACCTATTTGTTAATGGTTGTCCTTGTGAA
CTTCCCAATTATTTACCATGTCGACCTGGCGATACTCCTAGACGCCCACCACAGCCCATT
AATATAACTAAATATCTCAAAATCAATCCTGAATCATCAAATCAACTTATAAATAAAATT
ATAGTGCATTGGTCTCAAGAACCTTCAAAAAAGTATATGTTAAGTGCATTTCTAGTGCAT
AAACGAACTTCTGCTGAACTATTTGATCGGATCAAGTTAAGAGATGTAAAGCCACCAAAT
TACACAAGTACACTTATTAAAGAGAAGTTGAAAGATGATGCAGATAATGAAATTGCAACC
ACAATGTTGAGAGCTTCATTGATTTGTCCATTAGCTAAAACAAGAATGAAAACACCTTTT
CGCTCGTTAAGTTGTAAGCATGTTCAATGCTTTGATGGACTTTCATACTTGCAAATGAAT
GAACGCCATCCAAAATGGACTTGTCCAGTGTGCAATAAGGAAATTACATATGAAAGTTTA
GTAATCGATGGATATTTTCTTAGTGTTATCAAATCTATCAATGACAATGAAACAACAGAA
ATTCAATTGCATTCAAATGGATCTTGGTCGAAATTTGAAATGGAAAAAAACAACATAGTG
AAGAAAAAAGCAGCATCAAAAAATATTGATGTAATTGATGTTTGCGATAGTGACGAAGAA
GATGCACAAAACAATAATCAACCTTGTTCATCAAATTCTGAGAGAAAGCTACTTCAACCA
TGTCGTGACGGAGATTATATTGATCTTACTTTAGACGACGATTGA

>g3881.t2 Gene=g3881 Length=554
MKNEEEVDFDSWMLIYKGLIKEKKFDIWNITLDEEDELLLSRGKLFGSGLDIAPTALIEN
ICIEITEVGEGGKIIETSFYGSESAEVKKEGSQISLIIERMLTLKLPQLKIIWKQTGQPN
LHYKQEYQSALRSVIEGTNDEISEEKRKKIIDDISSIDLYPITNEREPLKFPKVMPNNIS
KPYELKVSDTNKTIQQCLPTASNIVQLQIKNLPFYDKLAVLLKPIHLNPNQTTSTQKALI
DLSLKIEHIQIIQKYRRNDSNGTVYDAQVILRFCLFDTSTTQNDNFPLNLDLFVNGCPCE
LPNYLPCRPGDTPRRPPQPINITKYLKINPESSNQLINKIIVHWSQEPSKKYMLSAFLVH
KRTSAELFDRIKLRDVKPPNYTSTLIKEKLKDDADNEIATTMLRASLICPLAKTRMKTPF
RSLSCKHVQCFDGLSYLQMNERHPKWTCPVCNKEITYESLVIDGYFLSVIKSINDNETTE
IQLHSNGSWSKFEMEKNNIVKKKAASKNIDVIDVCDSDEEDAQNNNQPCSSNSERKLLQP
CRDGDYIDLTLDDD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3881.t2 Gene3D G3DSA:2.60.120.780 - 206 361 0.0000000
7 g3881.t2 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 363 491 0.0000000
3 g3881.t2 PANTHER PTHR10782 ZINC FINGER MIZ DOMAIN-CONTAINING PROTEIN 207 534 0.0000000
4 g3881.t2 PANTHER PTHR10782:SF11 E3 SUMO-PROTEIN LIGASE PIAS1 207 534 0.0000000
2 g3881.t2 Pfam PF14324 PINIT domain 207 359 0.0000000
1 g3881.t2 Pfam PF02891 MIZ/SP-RING zinc finger 406 453 0.0000000
9 g3881.t2 ProSiteProfiles PS51466 PINIT domain profile. 196 362 28.3080000
8 g3881.t2 ProSiteProfiles PS51044 Zinc finger SP-RING-type profile. 394 471 41.2430000
5 g3881.t2 SUPERFAMILY SSF57850 RING/U-box 404 472 0.0000004

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