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.t2 TTS g15841.t2 6989475 6989475
chr_4 g15841 g15841.t2 isoform g15841.t2 6989741 6991957
chr_4 g15841 g15841.t2 exon g15841.t2.exon1 6989741 6990309
chr_4 g15841 g15841.t2 cds g15841.t2.CDS1 6989741 6990309
chr_4 g15841 g15841.t2 exon g15841.t2.exon2 6990448 6990525
chr_4 g15841 g15841.t2 cds g15841.t2.CDS2 6990448 6990525
chr_4 g15841 g15841.t2 exon g15841.t2.exon3 6990757 6990856
chr_4 g15841 g15841.t2 cds g15841.t2.CDS3 6990757 6990856
chr_4 g15841 g15841.t2 exon g15841.t2.exon4 6990913 6991257
chr_4 g15841 g15841.t2 cds g15841.t2.CDS4 6990913 6991257
chr_4 g15841 g15841.t2 exon g15841.t2.exon5 6991320 6991398
chr_4 g15841 g15841.t2 cds g15841.t2.CDS5 6991320 6991398
chr_4 g15841 g15841.t2 exon g15841.t2.exon6 6991660 6991841
chr_4 g15841 g15841.t2 cds g15841.t2.CDS6 6991660 6991841
chr_4 g15841 g15841.t2 exon g15841.t2.exon7 6991907 6991957
chr_4 g15841 g15841.t2 cds g15841.t2.CDS7 6991907 6991957
chr_4 g15841 g15841.t2 TSS g15841.t2 6992076 6992076

Sequences

>g15841.t2 Gene=g15841 Length=1404
ATGAAAAGAACGAGGCAATCAGATAAACTAACAGACGACGAAAGTTTTAAAAAAAAAGTT
GGTTTTCTTCGAGTCATTGATTTGCATTCAATTCTTGCTGTTTTTAAATATCCGAAAAAT
TCACGAAAGGATGCATTACAACGTAGATTATTGGAATTATTAAAAGGAAGGGAAATTAGT
GAAGCACAAAAATTGGAAATAAGAAAACAAGTCGAAAAAACTTTTGATAAAATTCAATCA
CTCGCTCCTAGACGATCAAAAACGCCAGATAGAACAGATATGTATGCTCAACAATTTAGC
ACTAATCCACTTGCACCGCATAATGTCACACCATTTGTATCATCAGGGTTTCCAATTCAA
CCTGATGTGAAACTCAAAAAACTCGCCTTTTACGATGTTCTTGGAACTTTACTTCAACCT
TCAACTTTAATGCCAGCAAGTCAAGCTAGACAACAAGAAGGAACTTATTATTTTCATTTG
ACACCACAACAAGCTACTGATATTGCTATGAATCGAGATATCAGAAACCCAGCTAAACCA
GAATATCTCATTCAAGTTCAATTAAGATTTTGCTTACTTGAAACAACGTCAGAACAAGAA
GATTGTTTTCCGCCAAATGTTCAAGTTAAAGTTAATGGAAAACTGTGTCAGTTGCCAAAT
CCAATTGCAACAAACAAACCAGGAGTAGAACCAAGAAGACCACCACGACCAGTAAACATC
ACACCACATGTGAAAATTTCACCAACTGTTGCTAACGTAATTCATGTTCAATGGCAGACA
GAATTTAACAGAGCTTTCGTTATTTCTTGCTATTTAGTAAGGAAATTAACATCAGATTGT
TTACTTCAAAGAATGAAAACGAAAGGAAGCAAACCATCAGAATATACAAGAGGATTAATT
AAAGAAAAGCTAAATGAAGATGCAGATTGTGAAATTGCAACAACAATGCTTCGAGTCTCA
TTAATTTGTCCACTTGGTAAAATGAGAATGACAACACCATGTCGGTCTTCATTATGCATG
CATTTACAATGCTTTGATGCATCTCTCTATTTACAAATGAATGAAAGAAAGCCAACTTGG
AACTGTCCAGTTTGTGACAAACAGGCACCATATGAAACATTGGTAATTGATGGATATTTC
CAAGAAGTTATTGGATCACAAAAGTTAGGACTTGATGATAATGAAATTCAATTGCATAAA
GATGGCGAATGGAGTACATTTGATACAAAAGCTGAAAAAGAAATTGCAACGAAAAGTTTG
ACAAAAGTCGAAATTATTTCTGATGATCTTGAAGTTGTTTCAGAAGATTTGCCAAAGTCA
AAAACAGGTGCAATTGGAAATGGAACTGCAAAACCTAATGCCGAGACTGTTGATTTGACA
CTTGATAGTGATGAAGAGAAATAG

>g15841.t2 Gene=g15841 Length=467
MKRTRQSDKLTDDESFKKKVGFLRVIDLHSILAVFKYPKNSRKDALQRRLLELLKGREIS
EAQKLEIRKQVEKTFDKIQSLAPRRSKTPDRTDMYAQQFSTNPLAPHNVTPFVSSGFPIQ
PDVKLKKLAFYDVLGTLLQPSTLMPASQARQQEGTYYFHLTPQQATDIAMNRDIRNPAKP
EYLIQVQLRFCLLETTSEQEDCFPPNVQVKVNGKLCQLPNPIATNKPGVEPRRPPRPVNI
TPHVKISPTVANVIHVQWQTEFNRAFVISCYLVRKLTSDCLLQRMKTKGSKPSEYTRGLI
KEKLNEDADCEIATTMLRVSLICPLGKMRMTTPCRSSLCMHLQCFDASLYLQMNERKPTW
NCPVCDKQAPYETLVIDGYFQEVIGSQKLGLDDNEIQLHKDGEWSTFDTKAEKEIATKSL
TKVEIISDDLEVVSEDLPKSKTGAIGNGTAKPNAETVDLTLDSDEEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g15841.t2 CDD cd16790 SP-RING_PIAS 320 367 7.58782E-31
6 g15841.t2 Gene3D G3DSA:1.10.720.30 - 10 74 2.4E-7
7 g15841.t2 Gene3D G3DSA:2.60.120.780 - 122 275 4.7E-58
8 g15841.t2 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 276 406 5.3E-41
13 g15841.t2 MobiDBLite mobidb-lite consensus disorder prediction 441 467 -
3 g15841.t2 PANTHER PTHR10782 ZINC FINGER MIZ DOMAIN-CONTAINING PROTEIN 113 420 1.5E-109
4 g15841.t2 PANTHER PTHR10782:SF11 E3 SUMO-PROTEIN LIGASE PIAS1 113 420 1.5E-109
2 g15841.t2 Pfam PF14324 PINIT domain 123 274 8.4E-31
1 g15841.t2 Pfam PF02891 MIZ/SP-RING zinc finger 319 367 4.3E-22
9 g15841.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
11 g15841.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 38 -
10 g15841.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 39 467 -
15 g15841.t2 ProSiteProfiles PS51466 PINIT domain profile. 109 276 49.354
14 g15841.t2 ProSiteProfiles PS51044 Zinc finger SP-RING-type profile. 308 385 40.853
5 g15841.t2 SUPERFAMILY SSF68906 SAP domain 12 61 4.49E-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