Gene loci information

Transcript annotation

  • This transcript has been annotated as Calcineurin subunit B type 2.

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 g16318 g16318.t1 TSS g16318.t1 9069313 9069313
chr_4 g16318 g16318.t1 isoform g16318.t1 9069415 9071578
chr_4 g16318 g16318.t1 exon g16318.t1.exon1 9069415 9069417
chr_4 g16318 g16318.t1 cds g16318.t1.CDS1 9069415 9069417
chr_4 g16318 g16318.t1 exon g16318.t1.exon2 9069602 9069641
chr_4 g16318 g16318.t1 cds g16318.t1.CDS2 9069602 9069641
chr_4 g16318 g16318.t1 exon g16318.t1.exon3 9070996 9071294
chr_4 g16318 g16318.t1 cds g16318.t1.CDS3 9070996 9071294
chr_4 g16318 g16318.t1 exon g16318.t1.exon4 9071408 9071578
chr_4 g16318 g16318.t1 cds g16318.t1.CDS4 9071408 9071578
chr_4 g16318 g16318.t1 TTS g16318.t1 9071651 9071651

Sequences

>g16318.t1 Gene=g16318 Length=513
ATGGGAAATGAGACGTCATTACCAATGGAGCTGTGCTCAAACTTTGATGCCGATGAAATT
CGTCGATTAGGAAAACGCTTTAAGAAACTCGATTTGGATAATTCTGGTGCATTGAGCATT
GATGAATTTATGTCATTGCCAGAACTTCAACAGAATCCACTTGTACAAAGGGTGATTGAT
ATATTTGATGCTGATGGCAATGGTGAAGTTGATTTTAAAGAATTCATTCATGGTGTCTCA
CAATTCAGTGTCAAAGGTGATAAATTATCAAAACTTAAATTTGCTTTTCGCATCTATGAC
ATGGACAATGATGGTTTTATCTCAAATGGTGAACTTTTTCAAGTACTAAAAATGATGGTT
GGAAATAATCTTAAAGATGCACAGCTGCAGCAGATAGTTGATAAAACAATTGTCTTTGCT
GATAAGGATGAAGATGGAAAAATTTCATTTGATGAATTTTGTTCAGTAGTTGGTAATACG
GACATTCATAAAAAAATGGTTGTCGATGTTTAA

>g16318.t1 Gene=g16318 Length=170
MGNETSLPMELCSNFDADEIRRLGKRFKKLDLDNSGALSIDEFMSLPELQQNPLVQRVID
IFDADGNGEVDFKEFIHGVSQFSVKGDKLSKLKFAFRIYDMDNDGFISNGELFQVLKMMV
GNNLKDAQLQQIVDKTIVFADKDEDGKISFDEFCSVVGNTDIHKKMVVDV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g16318.t1 CDD cd00051 EFh 91 157 9.36862E-15
6 g16318.t1 Gene3D G3DSA:1.10.238.10 - 2 170 1.1E-54
3 g16318.t1 PANTHER PTHR45942 PROTEIN PHOSPATASE 3 REGULATORY SUBUNIT B ALPHA ISOFORM TYPE 1 2 170 1.5E-97
4 g16318.t1 PANTHER PTHR45942:SF3 CALCINEURIN SUBUNIT B TYPE 1 2 170 1.5E-97
1 g16318.t1 Pfam PF13499 EF-hand domain pair 22 77 2.0E-8
2 g16318.t1 Pfam PF13499 EF-hand domain pair 90 156 2.0E-13
9 g16318.t1 ProSitePatterns PS00018 EF-hand calcium-binding domain. 63 75 -
8 g16318.t1 ProSitePatterns PS00018 EF-hand calcium-binding domain. 100 112 -
10 g16318.t1 ProSitePatterns PS00018 EF-hand calcium-binding domain. 141 153 -
16 g16318.t1 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 18 46 7.484
15 g16318.t1 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 50 85 12.114
17 g16318.t1 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 87 122 13.621
18 g16318.t1 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 128 163 11.724
14 g16318.t1 SMART SM00054 efh_1 22 50 6.6
11 g16318.t1 SMART SM00054 efh_1 54 82 2.3E-5
12 g16318.t1 SMART SM00054 efh_1 91 119 5.0E-4
13 g16318.t1 SMART SM00054 efh_1 132 160 0.0019
5 g16318.t1 SUPERFAMILY SSF47473 EF-hand 11 164 2.66E-42

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

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