Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Calcineurin subunit B type 1.

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_2 g8138 g8138.t2 TSS g8138.t2 28753381 28753381
chr_2 g8138 g8138.t2 isoform g8138.t2 28753479 28754062
chr_2 g8138 g8138.t2 exon g8138.t2.exon1 28753479 28754062
chr_2 g8138 g8138.t2 cds g8138.t2.CDS1 28753479 28753883
chr_2 g8138 g8138.t2 TTS g8138.t2 28754168 28754168

Sequences

>g8138.t2 Gene=g8138 Length=584
ATGGGTAATGAAATATCTTCTTCATTGATAGCAAAAAATTCAAAATTTACTCCTGAAGAA
TTAGAACGCTTGTCAAAAAAATTCAAAAAGTTGGATTTAGATAAATCAGGTTCAATAAGT
AGTGAAGAATTCATGTCGGTGCCTGAAATGAAATCTAATCCACTTGCACAACGAATCATT
ACTCTCTTTGACTCAAATGGTGATGGAGAAGTTGATTTTCGTGAGTTTATTGCAACTCTT
TCACTCTTTTCTGTGAAAAGTAATAAAGAGGAAAAACTCAAGTTTGCTTTTCGTATTTAT
GATGTGGATAATGATGGTCTGATTTCCTATAAAGATCTCGTAAATGTTAGTTTATACATA
CTGTCTTCAATCATCTATATTAAAACTTTGTATTTTATTCAATAAAGGCTCTTAAAATGA
TGGTAGGGAAAAATCTCACAGATTATCAAATCAATCAAATTTGTGCTAGAACAATGACGT
TTTCGGATGTAGATGATGATGCTGGTGGAAAAATCTCATTTGAAGCGTTTAGCAAAGTTA
TTGAAGATATGAATATCCATAACAAAATGATTCTTGAATTTTAA

>g8138.t2 Gene=g8138 Length=134
MGNEISSSLIAKNSKFTPEELERLSKKFKKLDLDKSGSISSEEFMSVPEMKSNPLAQRII
TLFDSNGDGEVDFREFIATLSLFSVKSNKEEKLKFAFRIYDVDNDGLISYKDLVNVSLYI
LSSIIYIKTLYFIQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g8138.t2 CDD cd00051 EFh 56 114 2.94554E-7
5 g8138.t2 Gene3D G3DSA:1.10.238.10 - 6 125 1.9E-36
3 g8138.t2 PANTHER PTHR45942 PROTEIN PHOSPATASE 3 REGULATORY SUBUNIT B ALPHA ISOFORM TYPE 1 10 116 2.5E-43
1 g8138.t2 Pfam PF13499 EF-hand domain pair 23 78 4.2E-8
2 g8138.t2 Pfam PF00036 EF hand 93 115 3.3E-6
9 g8138.t2 ProSitePatterns PS00018 EF-hand calcium-binding domain. 32 44 -
8 g8138.t2 ProSitePatterns PS00018 EF-hand calcium-binding domain. 64 76 -
7 g8138.t2 ProSitePatterns PS00018 EF-hand calcium-binding domain. 101 113 -
15 g8138.t2 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 19 54 11.975
13 g8138.t2 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 56 86 10.329
14 g8138.t2 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 88 123 12.17
12 g8138.t2 SMART SM00054 efh_1 23 51 1.5
10 g8138.t2 SMART SM00054 efh_1 55 83 0.0019
11 g8138.t2 SMART SM00054 efh_1 92 120 1.3
4 g8138.t2 SUPERFAMILY SSF47473 EF-hand 9 120 2.24E-31

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:0008597 calcium-dependent protein serine/threonine phosphatase regulator activity MF
GO:0005509 calcium ion 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.

Raw TPM values