Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Calmodulin.

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 g11432 g11432.t8 TTS g11432.t8 16196923 16196923
chr_1 g11432 g11432.t8 isoform g11432.t8 16196935 16199170
chr_1 g11432 g11432.t8 exon g11432.t8.exon1 16196935 16197948
chr_1 g11432 g11432.t8 cds g11432.t8.CDS1 16197864 16197948
chr_1 g11432 g11432.t8 exon g11432.t8.exon2 16198107 16198353
chr_1 g11432 g11432.t8 cds g11432.t8.CDS2 16198107 16198318
chr_1 g11432 g11432.t8 exon g11432.t8.exon3 16199164 16199170
chr_1 g11432 g11432.t8 TSS g11432.t8 NA NA

Sequences

>g11432.t8 Gene=g11432 Length=1268
GCTGACGGCAATGGTACCATAGATTTCCCTGAATTCTTAACTATGATGGCTCGCAAAATG
AAAGATACTGATAGTGAAGAAGAAATTCGGGAAGCATTCCGTGTATTTGATAAAGATGGC
AATGGTTTCATCTCTGCAGCTGAATTGCGCCACGTGATGACAAATTTGGGAGAAAAATTA
ACAGATGAAGAAGTCGATGAAATGATTCGTGAGGCAGATATTGATGGTGACGGACAAGTT
AATTACGAAGGTATAATTTGTCACCATGATGACATCAAAGTGAGCTCCTGTTTTAAGTGT
ACGTCAGCCTTTGAATACACAACACTATTACAATTATAAAAAAACTATAATAAAAAACTG
TAATATGATCTTCTATCAATATTTTGTTTTGTAAAGAAAAGAAGCTACGGAGAATGCTGC
ATATTTACCATCATGTAGCATTTTCTGCATTTTTCTAAATAAGCTTCTAATACAACAAGT
GAAAAAAGAGAAAAAATAACATTTTAAAAAGCGTATATTCGCACCGTAATTTTTTTTATA
ATTTTTTTAAAAGTTTTTTCAGTTAATTCAAAAAGATGATGAAGAGAGGAAAAAAGAGAT
AAAACATTAAAAAACATTGTCCTAAAGAAATTTGTTGAAAAATTTTCAGAGAATGAATAA
TAAGAAAAATTTGCAAAAATACTTATTTAAAATGAATAACAGAAAAAAAAACTATCGCTA
AAAGTTTAAATATAAAAGTAATAGTAAAGTAAGAGAAAAAAATTGAGAGAAAATTTTAAA
ATCCACTGTACTTTTTGAAAAATTGCAATTTAATCAAGCTTATCACACACTTCTCACACA
ATTCTGTACTATTCAAAATTCAAAAAATAAATATATGATTTCATTTAAAATAGCTTTTAA
TTTTCTTATTATTAATTCGTAAATAAATATATCTTTAAAAATCATAATTAATGGAAGAAA
CAAGCAAACAAAAAACACAGTCGAGATAATAGTAACAGAGAGGAAATTTATCTCATTCAA
CATTCTGTAAGAAAATCAAAATTTACGTTTTTAACAAGAAGATGAAAAAAGAAGTAAACA
TATAGTTATTTAATATTCTTGTATTAAATATATTTATGTAACAGTTCGATGATTATTATT
ATAATTAAAAGAAGAGAGAAACCAAGAAAAAAATTTCAAGTGGAATTATTTAAAAATGTA
CCATTATAAAAGCTAAAAAAATCACCAAGTTTCATTTTAAAAATAAATTTAATAAAATCC
TATATTAT

>g11432.t8 Gene=g11432 Length=98
MMARKMKDTDSEEEIREAFRVFDKDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREADI
DGDGQVNYEGIICHHDDIKVSSCFKCTSAFEYTTLLQL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g11432.t8 CDD cd00051 EFh 14 69 1.72606E-21
6 g11432.t8 Gene3D G3DSA:1.10.238.10 - 1 40 6.7E-17
5 g11432.t8 Gene3D G3DSA:1.10.238.10 - 41 70 5.3E-12
2 g11432.t8 PANTHER PTHR23050:SF401 CALMODULIN 1 72 6.0E-41
3 g11432.t8 PANTHER PTHR23050 CALCIUM BINDING PROTEIN 1 72 6.0E-41
1 g11432.t8 Pfam PF13499 EF-hand domain pair 12 69 8.4E-16
8 g11432.t8 ProSitePatterns PS00018 EF-hand calcium-binding domain. 23 35 -
12 g11432.t8 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 10 45 17.972
11 g11432.t8 ProSiteProfiles PS50222 EF-hand calcium-binding domain profile. 46 81 8.934
10 g11432.t8 SMART SM00054 efh_1 14 42 5.8E-9
9 g11432.t8 SMART SM00054 efh_1 50 78 1.4
4 g11432.t8 SUPERFAMILY SSF47473 EF-hand 2 77 3.49E-26

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
GO:0019722 calcium-mediated signaling BP

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