Gene loci information

Transcript annotation

  • This transcript has been annotated as E3 SUMO-protein ligase PIAS3.

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 g15841 g15841.t1 TTS g15841.t1 6989475 6989475
chr_4 g15841 g15841.t1 isoform g15841.t1 6989741 6991957
chr_4 g15841 g15841.t1 exon g15841.t1.exon1 6989741 6990309
chr_4 g15841 g15841.t1 cds g15841.t1.CDS1 6989741 6990309
chr_4 g15841 g15841.t1 exon g15841.t1.exon2 6990448 6990525
chr_4 g15841 g15841.t1 cds g15841.t1.CDS2 6990448 6990525
chr_4 g15841 g15841.t1 exon g15841.t1.exon3 6990745 6990856
chr_4 g15841 g15841.t1 cds g15841.t1.CDS3 6990745 6990856
chr_4 g15841 g15841.t1 exon g15841.t1.exon4 6990913 6991257
chr_4 g15841 g15841.t1 cds g15841.t1.CDS4 6990913 6991257
chr_4 g15841 g15841.t1 exon g15841.t1.exon5 6991320 6991398
chr_4 g15841 g15841.t1 cds g15841.t1.CDS5 6991320 6991398
chr_4 g15841 g15841.t1 exon g15841.t1.exon6 6991660 6991841
chr_4 g15841 g15841.t1 cds g15841.t1.CDS6 6991660 6991841
chr_4 g15841 g15841.t1 exon g15841.t1.exon7 6991907 6991957
chr_4 g15841 g15841.t1 cds g15841.t1.CDS7 6991907 6991957
chr_4 g15841 g15841.t1 TSS g15841.t1 6992076 6992076

Sequences

>g15841.t1 Gene=g15841 Length=1416
ATGAAAAGAACGAGGCAATCAGATAAACTAACAGACGACGAAAGTTTTAAAAAAAAAGTT
GGTTTTCTTCGAGTCATTGATTTGCATTCAATTCTTGCTGTTTTTAAATATCCGAAAAAT
TCACGAAAGGATGCATTACAACGTAGATTATTGGAATTATTAAAAGGAAGGGAAATTAGT
GAAGCACAAAAATTGGAAATAAGAAAACAAGTCGAAAAAACTTTTGATAAAATTCAATCA
CTCGCTCCTAGACGATCAAAAACGCCAGATAGAACAGATATGTATGCTCAACAATTTAGC
ACTAATCCACTTGCACCGCATAATGTCACACCATTTGTATCATCAGGGTTTCCAATTCAA
CCTGATGTGAAACTCAAAAAACTCGCCTTTTACGATGTTCTTGGAACTTTACTTCAACCT
TCAACTTTAATGCCAGCAAGTCAAGCTAGACAACAAGAAGGAACTTATTATTTTCATTTG
ACACCACAACAAGCTACTGATATTGCTATGAATCGAGATATCAGAAACCCAGCTAAACCA
GAATATCTCATTCAAGTTCAATTAAGATTTTGCTTACTTGAAACAACGTCAGAACAAGAA
GATTGTTTTCCGCCAAATGTTCAAGTTAAAGTTAATGGAAAACTGTGTCAGTTGCCAAAT
CCAATTGCAACAAACAAACCAGGAGTAGAACCAAGAAGACCACCACGACCAGTAAACATC
ACACCACATGTGAAAATTTCACCAACTGTTGCTAACGGTAAGGACATGGTAATTCATGTT
CAATGGCAGACAGAATTTAACAGAGCTTTCGTTATTTCTTGCTATTTAGTAAGGAAATTA
ACATCAGATTGTTTACTTCAAAGAATGAAAACGAAAGGAAGCAAACCATCAGAATATACA
AGAGGATTAATTAAAGAAAAGCTAAATGAAGATGCAGATTGTGAAATTGCAACAACAATG
CTTCGAGTCTCATTAATTTGTCCACTTGGTAAAATGAGAATGACAACACCATGTCGGTCT
TCATTATGCATGCATTTACAATGCTTTGATGCATCTCTCTATTTACAAATGAATGAAAGA
AAGCCAACTTGGAACTGTCCAGTTTGTGACAAACAGGCACCATATGAAACATTGGTAATT
GATGGATATTTCCAAGAAGTTATTGGATCACAAAAGTTAGGACTTGATGATAATGAAATT
CAATTGCATAAAGATGGCGAATGGAGTACATTTGATACAAAAGCTGAAAAAGAAATTGCA
ACGAAAAGTTTGACAAAAGTCGAAATTATTTCTGATGATCTTGAAGTTGTTTCAGAAGAT
TTGCCAAAGTCAAAAACAGGTGCAATTGGAAATGGAACTGCAAAACCTAATGCCGAGACT
GTTGATTTGACACTTGATAGTGATGAAGAGAAATAG

>g15841.t1 Gene=g15841 Length=471
MKRTRQSDKLTDDESFKKKVGFLRVIDLHSILAVFKYPKNSRKDALQRRLLELLKGREIS
EAQKLEIRKQVEKTFDKIQSLAPRRSKTPDRTDMYAQQFSTNPLAPHNVTPFVSSGFPIQ
PDVKLKKLAFYDVLGTLLQPSTLMPASQARQQEGTYYFHLTPQQATDIAMNRDIRNPAKP
EYLIQVQLRFCLLETTSEQEDCFPPNVQVKVNGKLCQLPNPIATNKPGVEPRRPPRPVNI
TPHVKISPTVANGKDMVIHVQWQTEFNRAFVISCYLVRKLTSDCLLQRMKTKGSKPSEYT
RGLIKEKLNEDADCEIATTMLRVSLICPLGKMRMTTPCRSSLCMHLQCFDASLYLQMNER
KPTWNCPVCDKQAPYETLVIDGYFQEVIGSQKLGLDDNEIQLHKDGEWSTFDTKAEKEIA
TKSLTKVEIISDDLEVVSEDLPKSKTGAIGNGTAKPNAETVDLTLDSDEEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g15841.t1 CDD cd16790 SP-RING_PIAS 324 371 7.82287E-31
6 g15841.t1 Gene3D G3DSA:1.10.720.30 - 10 74 2.5E-7
7 g15841.t1 Gene3D G3DSA:2.60.120.780 - 122 279 1.0E-55
8 g15841.t1 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 280 410 5.4E-41
13 g15841.t1 MobiDBLite mobidb-lite consensus disorder prediction 445 471 -
3 g15841.t1 PANTHER PTHR10782 ZINC FINGER MIZ DOMAIN-CONTAINING PROTEIN 113 424 4.2E-107
4 g15841.t1 PANTHER PTHR10782:SF11 E3 SUMO-PROTEIN LIGASE PIAS1 113 424 4.2E-107
2 g15841.t1 Pfam PF14324 PINIT domain 123 278 1.1E-27
1 g15841.t1 Pfam PF02891 MIZ/SP-RING zinc finger 323 371 4.3E-22
9 g15841.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
11 g15841.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 38 -
10 g15841.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 39 471 -
15 g15841.t1 ProSiteProfiles PS51466 PINIT domain profile. 109 280 47.021
14 g15841.t1 ProSiteProfiles PS51044 Zinc finger SP-RING-type profile. 312 389 40.853
5 g15841.t1 SUPERFAMILY SSF68906 SAP domain 12 61 4.58E-6

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.

Raw TPM values