General information for g11432.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Calmodulin.
Parent gene
- The parent gene g11432 is located on chr_1: 16198833..16201101 (- strand)
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.t17 | isoform | g11432.t17 | 16197311 | 16200849 |
| chr_1 | g11432 | g11432.t17 | exon | g11432.t17.exon1 | 16197311 | 16197484 |
| chr_1 | g11432 | g11432.t17 | TTS | g11432.t17 | 16197312 | 16197312 |
| chr_1 | g11432 | g11432.t17 | exon | g11432.t17.exon2 | 16197539 | 16197948 |
| chr_1 | g11432 | g11432.t17 | cds | g11432.t17.CDS1 | 16197920 | 16197948 |
| chr_1 | g11432 | g11432.t17 | exon | g11432.t17.exon3 | 16198111 | 16198353 |
| chr_1 | g11432 | g11432.t17 | cds | g11432.t17.CDS2 | 16198111 | 16198353 |
| chr_1 | g11432 | g11432.t17 | exon | g11432.t17.exon4 | 16199164 | 16199299 |
| chr_1 | g11432 | g11432.t17 | cds | g11432.t17.CDS3 | 16199164 | 16199299 |
| chr_1 | g11432 | g11432.t17 | exon | g11432.t17.exon5 | 16199438 | 16199476 |
| chr_1 | g11432 | g11432.t17 | cds | g11432.t17.CDS4 | 16199438 | 16199476 |
| chr_1 | g11432 | g11432.t17 | exon | g11432.t17.exon6 | 16200847 | 16200849 |
| chr_1 | g11432 | g11432.t17 | cds | g11432.t17.CDS5 | 16200847 | 16200849 |
| chr_1 | g11432 | g11432.t17 | TSS | g11432.t17 | 16201105 | 16201105 |
Sequences
>g11432.t17 Gene=g11432 Length=1005
ATGGCTGATCAATTAACAGAGGAGCAAATCGCTGAGTTCAAAGAAGCATTCTCATTGTTC
GACAAAGACGGTGATGGCACAATTACCACAAAAGAATTGGGCACTGTGATGAGATCACTT
GGTCAAAACCCGACAGAAGCTGAACTTCAGGATATGATTAACGAAGTTGATGCTGACGGC
AATGGTACCATAGATTTCCCTGAATTCTTAACTATGATGGCTCGCAAAATGAAAGATACT
GATAGTGAAGAAGAAATTCGGGAAGCATTCCGTGTATTTGATAAAGATGGCAATGGTTTC
ATCTCTGCAGCTGAATTGCGCCACGTGATGACAAATTTGGGAGAAAAATTAACAGATGAA
GAAGTCGATGAAATGATTCGTGAGGCAGATATTGATGGTGACGGACAAGTTAATTACGAA
GAATTTGTCACCATGATGACATCAAAGTGAGCTCCTGTTTTAAGTGTACGTCAGCCTTTG
AATACACAACACTATTACAATTATAAAAAAACTATAATAAAAAACTGTAATATGATCTTC
TATCAATATTTTGTTTTGTAAAGAAAAGAAGCTACGGAGAATGCTGCATATTTACCATCA
TGTAGCATTTTCTGCATTTTTCTAAATAAGCTTCTAATACAACAAGTGAAAAAAGAGAAA
AAATAACATTTTAAAAAGCGTATATTCGCACCGTAATTTTTTTTATAATTTTTTTAAAAG
TTTTTTCAGTTAATTCAAAAAGATGATGAAGAGAGGAAAAAAGAGATAAAACATTAAAAA
ACATTGTCCTAAAGAAATTTGTTGAAAAATTTTCAGAGAATGAATAATAAGTAAAAGTTT
AAATATAAAAGTAATAGTAAAGTAAGAGAAAAAAATTGAGAGAAAATTTTAAAATCCACT
GTACTTTTTGAAAAATTGCAATTTAATCAAGCTTATCACACACTTCTCACACAATTCTGT
ACTATTCAAAATTCAAAAAATAAATATATGATTTCATTTAAAATA
>g11432.t17 Gene=g11432 Length=149
MADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADG
NGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGFISAAELRHVMTNLGEKLTDE
EVDEMIREADIDGDGQVNYEEFVTMMTSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g11432.t17 | CDD | cd00051 | EFh | 12 | 74 | 5.45279E-22 |
| 10 | g11432.t17 | CDD | cd00051 | EFh | 85 | 147 | 2.23407E-23 |
| 8 | g11432.t17 | Gene3D | G3DSA:1.10.238.10 | - | 1 | 75 | 1.8E-34 |
| 6 | g11432.t17 | Gene3D | G3DSA:1.10.238.10 | - | 76 | 123 | 1.0E-27 |
| 7 | g11432.t17 | Gene3D | G3DSA:1.10.238.10 | - | 124 | 149 | 3.3E-7 |
| 3 | g11432.t17 | PANTHER | PTHR23050:SF401 | CALMODULIN | 3 | 149 | 1.3E-95 |
| 4 | g11432.t17 | PANTHER | PTHR23050 | CALCIUM BINDING PROTEIN | 3 | 149 | 1.3E-95 |
| 2 | g11432.t17 | Pfam | PF13499 | EF-hand domain pair | 12 | 73 | 1.2E-15 |
| 1 | g11432.t17 | Pfam | PF13499 | EF-hand domain pair | 83 | 146 | 7.9E-19 |
| 14 | g11432.t17 | ProSitePatterns | PS00018 | EF-hand calcium-binding domain. | 21 | 33 | - |
| 11 | g11432.t17 | ProSitePatterns | PS00018 | EF-hand calcium-binding domain. | 57 | 69 | - |
| 13 | g11432.t17 | ProSitePatterns | PS00018 | EF-hand calcium-binding domain. | 94 | 106 | - |
| 12 | g11432.t17 | ProSitePatterns | PS00018 | EF-hand calcium-binding domain. | 130 | 142 | - |
| 19 | g11432.t17 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 8 | 43 | 17.303 |
| 21 | g11432.t17 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 44 | 79 | 14.792 |
| 22 | g11432.t17 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 81 | 116 | 17.972 |
| 20 | g11432.t17 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 117 | 149 | 15.155 |
| 18 | g11432.t17 | SMART | SM00054 | efh_1 | 12 | 40 | 8.5E-9 |
| 17 | g11432.t17 | SMART | SM00054 | efh_1 | 48 | 76 | 7.2E-9 |
| 16 | g11432.t17 | SMART | SM00054 | efh_1 | 85 | 113 | 5.8E-9 |
| 15 | g11432.t17 | SMART | SM00054 | efh_1 | 121 | 149 | 1.3E-9 |
| 5 | g11432.t17 | SUPERFAMILY | SSF47473 | EF-hand | 2 | 148 | 1.01E-58 |
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 transcript has been annotated with K02183 (calmodulin)
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. There were no conditions that were differentially expressed