Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Calcium-binding protein E63-1.

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_1 g10355 g10355.t10 isoform g10355.t10 9085521 9090424
chr_1 g10355 g10355.t10 exon g10355.t10.exon1 9085521 9085665
chr_1 g10355 g10355.t10 cds g10355.t10.CDS1 9085566 9085665
chr_1 g10355 g10355.t10 exon g10355.t10.exon2 9089106 9089229
chr_1 g10355 g10355.t10 cds g10355.t10.CDS2 9089106 9089229
chr_1 g10355 g10355.t10 exon g10355.t10.exon3 9089428 9089576
chr_1 g10355 g10355.t10 cds g10355.t10.CDS3 9089428 9089576
chr_1 g10355 g10355.t10 exon g10355.t10.exon4 9089634 9090424
chr_1 g10355 g10355.t10 cds g10355.t10.CDS4 9089634 9089656
chr_1 g10355 g10355.t10 TTS g10355.t10 9090432 9090432
chr_1 g10355 g10355.t10 TSS g10355.t10 NA NA

Sequences

>g10355.t10 Gene=g10355 Length=1209
GACTTACGAACGGCTTTTGACTTGCTTGATCGTGACCAAGATGGCATGGTGACACCCACA
GAACTGCAATTTATGCTCAGAAACTTGGGTATCCATGTGAGCGACGAGTTGATCGATGGT
TTAATGAAAGAAGCAAGTAAAACTGGAAATGGATTGATAGATGAGACAGAATTCCTACAA
TGGATAGGAAGGATACAAGCATTAAGAGAAGAGTCAACTCCATCTGCCGATGACGATGAT
CTCACACAAGATTTAGTGGCAGCTTTTAGAGTGTTTGACAGAGACAATAATGGTTATATA
ACACGTGATGAACTTCAGCGAGCAATGCAAATGATTGGTGAAAATGTGACTGAAGGACAA
CTAAATGACATGCTTGCGCTTGCAGATCTTGACAAAGATGGTAGAATTAATTATGAAGAA
TTTGCAAGATTGCTATTGTAAGAAGGAGCACACACATATATTTACTTTTATCTACAAAAT
AAAAATTTTTGTCCTTAGAAATAATGAATTACAATGTTTAAATGTTAAAGAATAAAAATT
AAACACCAAAGAGAACACACTTACACACAGAATACACATATATATACAAAATAAATGAAT
TTTATTTCTCAAAAATTTATTATATAATGAAGTAGAAATAAATTTCAGACCTTGAAAATT
TTTCTTTTCTTATTTTGCTACATTTAATTTTCAATGTTTGTCAAGAATATATTTGTAGTA
AATAGCTGTTATATAATGGAAAAATGAGAATTTTCTTTTTAAATTTTTTAAAACATACAA
AAAAGAGAATCAAAATTTCTTCCATTTACTTTGAGAAAATTTTTTATTGAAATTGATCAA
ATACAAGATGAATGAAAAAATATTAGGAGAGAGTGCAATTTGATATAATTCAATGAAAAC
AACAAAAAATGAAATATTTTTTTAAATATTAAAATGAATTTTGTTACGCTTGTTGTGTAG
ATTTTACATTATAATAATATTATACAATTAAATTATACTACACTATTATACATTACATAA
ATACAATAATATTTAAATACTGAAAAAAAAAACATAAATAAAAATTATTAATTAAATATT
TAGAATGTTAAGTGCATTATAATGCATTAAAAAACAACACATTTTAAAAAAAGAATGAAG
GCAAATGTTGTAGAGAAAATAAGGAGAAGAATGAACGAGTGAAAAGAGTACTTTAAATAA
ATTGTTTTG

>g10355.t10 Gene=g10355 Length=131
MVTPTELQFMLRNLGIHVSDELIDGLMKEASKTGNGLIDETEFLQWIGRIQALREESTPS
ADDDDLTQDLVAAFRVFDRDNNGYITRDELQRAMQMIGENVTEGQLNDMLALADLDKDGR
INYEEFARLLL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g10355.t10 CDD cd00051 EFh 69 130 1.42968E-20
6 g10355.t10 Gene3D G3DSA:1.10.238.10 - 1 48 1.0E-8
7 g10355.t10 Gene3D G3DSA:1.10.238.10 - 49 131 6.8E-24
3 g10355.t10 PANTHER PTHR23050:SF254 CALCIUM-BINDING PROTEIN E63-1 2 131 1.1E-63
4 g10355.t10 PANTHER PTHR23050 CALCIUM BINDING PROTEIN 2 131 1.1E-63
2 g10355.t10 Pfam PF13833 EF-hand domain pair 2 45 6.7E-4
1 g10355.t10 Pfam PF13499 EF-hand domain pair 70 129 2.5E-15
10 g10355.t10 ProSitePatterns PS00018 EF-hand calcium-binding domain. 78 90 -
9 g10355.t10 ProSitePatterns PS00018 EF-hand calcium-binding domain. 114 126 -
17 g10355.t10 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 1 17 6.284
16 g10355.t10 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 18 53 8.851
15 g10355.t10 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 65 100 15.518
14 g10355.t10 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 101 131 12.17
13 g10355.t10 SMART SM00054 efh_1 22 50 3.4
12 g10355.t10 SMART SM00054 efh_1 69 97 1.1E-6
11 g10355.t10 SMART SM00054 efh_1 105 131 0.88
5 g10355.t10 SUPERFAMILY SSF47473 EF-hand 2 130 5.92E-34

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: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. There were no conditions that were differentially expressed