Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Speckle-type POZ 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_3 g1546 g1546.t1 TSS g1546.t1 11785765 11785765
chr_3 g1546 g1546.t1 isoform g1546.t1 11785835 11787743
chr_3 g1546 g1546.t1 exon g1546.t1.exon1 11785835 11785974
chr_3 g1546 g1546.t1 cds g1546.t1.CDS1 11785835 11785974
chr_3 g1546 g1546.t1 exon g1546.t1.exon2 11786035 11786302
chr_3 g1546 g1546.t1 cds g1546.t1.CDS2 11786035 11786302
chr_3 g1546 g1546.t1 exon g1546.t1.exon3 11786361 11786839
chr_3 g1546 g1546.t1 cds g1546.t1.CDS3 11786361 11786839
chr_3 g1546 g1546.t1 exon g1546.t1.exon4 11786903 11787044
chr_3 g1546 g1546.t1 cds g1546.t1.CDS4 11786903 11787044
chr_3 g1546 g1546.t1 exon g1546.t1.exon5 11787109 11787569
chr_3 g1546 g1546.t1 cds g1546.t1.CDS5 11787109 11787569
chr_3 g1546 g1546.t1 exon g1546.t1.exon6 11787623 11787743
chr_3 g1546 g1546.t1 cds g1546.t1.CDS6 11787623 11787743
chr_3 g1546 g1546.t1 TTS g1546.t1 11788003 11788003

Sequences

>g1546.t1 Gene=g1546 Length=1611
ATGGAAGATATTAATAAGAATATAACAAAAACTCATCTGATATGGAAAATAAGTAACATT
AACCAGGAAACTTTAAAAAATGGCATCTTTATTAGGTCAAATACTTTCAAAACAATTATT
GGTGATGATGAAATCAAATGGAGCCTAAAATTTCAATGTTTTGATAACAAAGTTGGAATT
TATTGGCAAAGAAGAAGCTTTGATACTGATGATTTTATGGTCCACTTTATGCTGGATGTA
TGTGATTCAAAAGATCAATTCAAAAAATCATACAAATTTGAGAGAAATTTAAGCGAATTC
ACTAAAAATAATTATAGTTGGGGATGGACATTTGCCACTTTTGAAAGAATTCTTAATATA
CAAAACAGTTCTCTTTATAAAGAGAATACTTTGAAATTTACTGCTACGTTGACATTGAAC
AAAATTCGTGAAAAAATCAAAATGCCTGAACCAAGTGAACATCTTCGAAATTATGCCAAA
TACATAAACTCAAGAGAGTTTAGCGATTTCACTTGTATTTCTTCAGATGGTAAAAGATTT
CCTATTCATCGTAACATTCTAGCTGCACAATCTCCTGTTTTTGAGAAAATGCTTAAAACA
AACATGTCTAAGAACAAATCAAAGACAATCAGAATCAAAGATGTTGATGGAGATACTTTT
TTGGAGTTGTTGAAATTCATTTATACAAGAGAAGTAGAAAATTTGAAAAATGTAGCATCA
TCATTGATTTATGCAGCAGAGAAATATGAAATCAACGAACTCAAGAAGTTATGTACAGAA
TCACTTATTGAAAATTTATCAGTAGACAATGCTTTGGAAACACTTATTTTGGCTGATCGT
TTTAATGAGAAAACTTTACTTTTTGAATGTTTGCAGTTTATTATAAAAAATTTTCATGTA
ATCAGCAATAAAGACTGGAAGCAGACTGATTCTAAATTGATGCTGAAAGTGATGAAAGCC
ATCGAAAAAAATTATAAGAAACAAATCAAATCCTCTCCTGAAGAGAACAATTTGAAATTT
ACTGTTTTGTTCTTAGGAAACAAAACGCTTGAACGAAGCGAAAAACTTCGAAATTATACC
AAACTGTTAAACTCAAATGACTTTAGTGATTTCACTTGTATTTCTTCAGATGGTAAAGAA
TTTCCTATTCACTGCTGCATTCTAGCTGCAGAGTCTCCTGTTTTTGAGAAAATGCTTAAA
GCAGACATGTCTGAGAACAAATCAAAGATAGTCAAAATTGAAGATGTTGATGGAGATACT
TTTTTGGAGTTGTTGAGATTCATTTATACAAAAGAAGTTGAAAATTTGAAAAATGTAGCA
TCATCATTGATTTATGCAGCAGAGAAATACGAAATCAACGAACTCAAGAAGTTATGTACA
GAATCACTTATTGAAAATTTAACAGTGGACAATGCTTTGGAAACACTTGTTTTGGCTGAT
CGTTTTAATGAGAAAACTTTACTTTGTGAATGCTTGCAGTTTATTATAAACAATTTTGAT
GCGATAAATGATGAAGACTGGGAGCGAATTGATTCTAAATTGATGTTGAAAATGATGAAG
GCAATCGAAAAAAAGTATGAAAAAATCATTGAGTTGCAAGATTCACTTTGA

>g1546.t1 Gene=g1546 Length=536
MEDINKNITKTHLIWKISNINQETLKNGIFIRSNTFKTIIGDDEIKWSLKFQCFDNKVGI
YWQRRSFDTDDFMVHFMLDVCDSKDQFKKSYKFERNLSEFTKNNYSWGWTFATFERILNI
QNSSLYKENTLKFTATLTLNKIREKIKMPEPSEHLRNYAKYINSREFSDFTCISSDGKRF
PIHRNILAAQSPVFEKMLKTNMSKNKSKTIRIKDVDGDTFLELLKFIYTREVENLKNVAS
SLIYAAEKYEINELKKLCTESLIENLSVDNALETLILADRFNEKTLLFECLQFIIKNFHV
ISNKDWKQTDSKLMLKVMKAIEKNYKKQIKSSPEENNLKFTVLFLGNKTLERSEKLRNYT
KLLNSNDFSDFTCISSDGKEFPIHCCILAAESPVFEKMLKADMSENKSKIVKIEDVDGDT
FLELLRFIYTKEVENLKNVASSLIYAAEKYEINELKKLCTESLIENLTVDNALETLVLAD
RFNEKTLLCECLQFIINNFDAINDEDWERIDSKLMLKMMKAIEKKYEKIIELQDSL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
20 g1546.t1 CDD cd14733 BACK 267 319 0.0000068
19 g1546.t1 CDD cd14733 BACK 468 520 0.0000133
16 g1546.t1 Gene3D G3DSA:2.60.210.10 Apoptosis 9 140 0.0000010
15 g1546.t1 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 143 261 0.0000000
12 g1546.t1 Gene3D G3DSA:1.25.40.420 - 265 339 0.0000000
14 g1546.t1 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 348 462 0.0000000
13 g1546.t1 Gene3D G3DSA:1.25.40.420 - 466 533 0.0000000
4 g1546.t1 PANTHER PTHR24413:SF213 FI01029P-RELATED 85 328 0.0000000
6 g1546.t1 PANTHER PTHR24413 SPECKLE-TYPE POZ PROTEIN 85 328 0.0000000
3 g1546.t1 PANTHER PTHR24413:SF213 FI01029P-RELATED 324 521 0.0000000
5 g1546.t1 PANTHER PTHR24413 SPECKLE-TYPE POZ PROTEIN 324 521 0.0000000
2 g1546.t1 Pfam PF00651 BTB/POZ domain 161 265 0.0000000
1 g1546.t1 Pfam PF00651 BTB/POZ domain 360 466 0.0000000
17 g1546.t1 ProSiteProfiles PS50097 BTB domain profile. 168 236 16.6310000
18 g1546.t1 ProSiteProfiles PS50097 BTB domain profile. 369 437 15.4320000
10 g1546.t1 SMART SM00225 BTB_4 168 266 0.0000000
11 g1546.t1 SMART SM00225 BTB_4 369 467 0.0000000
7 g1546.t1 SUPERFAMILY SSF49599 TRAF domain-like 8 141 0.0000000
9 g1546.t1 SUPERFAMILY SSF54695 POZ domain 151 264 0.0000000
8 g1546.t1 SUPERFAMILY SSF54695 POZ domain 354 465 0.0000000

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:0005515 protein binding MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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