Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Speckle-type POZ protein B.

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.t2 TSS g1546.t2 11785765 11785765
chr_3 g1546 g1546.t2 isoform g1546.t2 11785835 11787961
chr_3 g1546 g1546.t2 exon g1546.t2.exon1 11785835 11785974
chr_3 g1546 g1546.t2 cds g1546.t2.CDS1 11785835 11785974
chr_3 g1546 g1546.t2 exon g1546.t2.exon2 11786035 11786302
chr_3 g1546 g1546.t2 cds g1546.t2.CDS2 11786035 11786302
chr_3 g1546 g1546.t2 exon g1546.t2.exon3 11786361 11786839
chr_3 g1546 g1546.t2 cds g1546.t2.CDS3 11786361 11786839
chr_3 g1546 g1546.t2 exon g1546.t2.exon4 11786903 11787044
chr_3 g1546 g1546.t2 cds g1546.t2.CDS4 11786903 11787044
chr_3 g1546 g1546.t2 exon g1546.t2.exon5 11787109 11787544
chr_3 g1546 g1546.t2 cds g1546.t2.CDS5 11787109 11787544
chr_3 g1546 g1546.t2 exon g1546.t2.exon6 11787792 11787961
chr_3 g1546 g1546.t2 cds g1546.t2.CDS6 11787792 11787835
chr_3 g1546 g1546.t2 TTS g1546.t2 11788003 11788003

Sequences

>g1546.t2 Gene=g1546 Length=1635
ATGGAAGATATTAATAAGAATATAACAAAAACTCATCTGATATGGAAAATAAGTAACATT
AACCAGGAAACTTTAAAAAATGGCATCTTTATTAGGTCAAATACTTTCAAAACAATTATT
GGTGATGATGAAATCAAATGGAGCCTAAAATTTCAATGTTTTGATAACAAAGTTGGAATT
TATTGGCAAAGAAGAAGCTTTGATACTGATGATTTTATGGTCCACTTTATGCTGGATGTA
TGTGATTCAAAAGATCAATTCAAAAAATCATACAAATTTGAGAGAAATTTAAGCGAATTC
ACTAAAAATAATTATAGTTGGGGATGGACATTTGCCACTTTTGAAAGAATTCTTAATATA
CAAAACAGTTCTCTTTATAAAGAGAATACTTTGAAATTTACTGCTACGTTGACATTGAAC
AAAATTCGTGAAAAAATCAAAATGCCTGAACCAAGTGAACATCTTCGAAATTATGCCAAA
TACATAAACTCAAGAGAGTTTAGCGATTTCACTTGTATTTCTTCAGATGGTAAAAGATTT
CCTATTCATCGTAACATTCTAGCTGCACAATCTCCTGTTTTTGAGAAAATGCTTAAAACA
AACATGTCTAAGAACAAATCAAAGACAATCAGAATCAAAGATGTTGATGGAGATACTTTT
TTGGAGTTGTTGAAATTCATTTATACAAGAGAAGTAGAAAATTTGAAAAATGTAGCATCA
TCATTGATTTATGCAGCAGAGAAATATGAAATCAACGAACTCAAGAAGTTATGTACAGAA
TCACTTATTGAAAATTTATCAGTAGACAATGCTTTGGAAACACTTATTTTGGCTGATCGT
TTTAATGAGAAAACTTTACTTTTTGAATGTTTGCAGTTTATTATAAAAAATTTTCATGTA
ATCAGCAATAAAGACTGGAAGCAGACTGATTCTAAATTGATGCTGAAAGTGATGAAAGCC
ATCGAAAAAAATTATAAGAAACAAATCAAATCCTCTCCTGAAGAGAACAATTTGAAATTT
ACTGTTTTGTTCTTAGGAAACAAAACGCTTGAACGAAGCGAAAAACTTCGAAATTATACC
AAACTGTTAAACTCAAATGACTTTAGTGATTTCACTTGTATTTCTTCAGATGGTAAAGAA
TTTCCTATTCACTGCTGCATTCTAGCTGCAGAGTCTCCTGTTTTTGAGAAAATGCTTAAA
GCAGACATGTCTGAGAACAAATCAAAGATAGTCAAAATTGAAGATGTTGATGGAGATACT
TTTTTGGAGTTGTTGAGATTCATTTATACAAAAGAAGTTGAAAATTTGAAAAATGTAGCA
TCATCATTGATTTATGCAGCAGAGAAATACGAAATCAACGAACTCAAGAAGTTATGTACA
GAATCACTTATTGAAAATTTAACAGTGGACAATGCTTTGGAAACACTTGTTTTGGCTGAT
CGTTTTAATGAGAAAACTTTACTTTTTTTTCTAAATGTAAAAATCACTTCATATTTCAAT
AATTATTGAAAAGCAAGTTAATTACAAAATGTAACAAATATTTATCATGGAAATAATGAT
GATGCAGTAAATTACTAACAAAGAGACGATGAAGAAAATTTTTAGGGAACGAGATATAGA
GATAGAATTATAGAA

>g1546.t2 Gene=g1546 Length=502
MEDINKNITKTHLIWKISNINQETLKNGIFIRSNTFKTIIGDDEIKWSLKFQCFDNKVGI
YWQRRSFDTDDFMVHFMLDVCDSKDQFKKSYKFERNLSEFTKNNYSWGWTFATFERILNI
QNSSLYKENTLKFTATLTLNKIREKIKMPEPSEHLRNYAKYINSREFSDFTCISSDGKRF
PIHRNILAAQSPVFEKMLKTNMSKNKSKTIRIKDVDGDTFLELLKFIYTREVENLKNVAS
SLIYAAEKYEINELKKLCTESLIENLSVDNALETLILADRFNEKTLLFECLQFIIKNFHV
ISNKDWKQTDSKLMLKVMKAIEKNYKKQIKSSPEENNLKFTVLFLGNKTLERSEKLRNYT
KLLNSNDFSDFTCISSDGKEFPIHCCILAAESPVFEKMLKADMSENKSKIVKIEDVDGDT
FLELLRFIYTKEVENLKNVASSLIYAAEKYEINELKKLCTESLIENLTVDNALETLVLAD
RFNEKTLLFFLNVKITSYFNNY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g1546.t2 CDD cd14733 BACK 267 319 0.0000048
15 g1546.t2 Gene3D G3DSA:2.60.210.10 Apoptosis 9 140 0.0000009
13 g1546.t2 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 143 261 0.0000000
12 g1546.t2 Gene3D G3DSA:1.25.40.420 - 265 339 0.0000000
14 g1546.t2 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 347 491 0.0000000
3 g1546.t2 PANTHER PTHR24413:SF213 FI01029P-RELATED 82 328 0.0000000
5 g1546.t2 PANTHER PTHR24413 SPECKLE-TYPE POZ PROTEIN 82 328 0.0000000
4 g1546.t2 PANTHER PTHR24413:SF213 FI01029P-RELATED 327 487 0.0000000
6 g1546.t2 PANTHER PTHR24413 SPECKLE-TYPE POZ PROTEIN 327 487 0.0000000
2 g1546.t2 Pfam PF00651 BTB/POZ domain 161 265 0.0000000
1 g1546.t2 Pfam PF00651 BTB/POZ domain 360 466 0.0000000
16 g1546.t2 ProSiteProfiles PS50097 BTB domain profile. 168 236 16.6310000
17 g1546.t2 ProSiteProfiles PS50097 BTB domain profile. 369 437 15.4320000
10 g1546.t2 SMART SM00225 BTB_4 168 266 0.0000000
11 g1546.t2 SMART SM00225 BTB_4 369 467 0.0000000
7 g1546.t2 SUPERFAMILY SSF49599 TRAF domain-like 8 141 0.0000000
9 g1546.t2 SUPERFAMILY SSF54695 POZ domain 151 264 0.0000000
8 g1546.t2 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