General information for g6031.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Transient receptor potential-gamma protein.
Parent gene
- The parent gene g6031 is located on chr_2: 13661635..13683926 (+ 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_2 | g6031 | g6031.t1 | isoform | g6031.t1 | 13661635 | 13683926 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon1 | 13661635 | 13661901 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS1 | 13661635 | 13661901 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon2 | 13669447 | 13669580 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS2 | 13669447 | 13669580 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon3 | 13669765 | 13670002 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS3 | 13669765 | 13670002 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon4 | 13670093 | 13670135 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS4 | 13670093 | 13670135 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon5 | 13670192 | 13670233 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS5 | 13670192 | 13670233 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon6 | 13670307 | 13670364 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS6 | 13670307 | 13670364 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon7 | 13675437 | 13675626 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS7 | 13675437 | 13675626 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon8 | 13675704 | 13675886 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS8 | 13675704 | 13675886 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon9 | 13680879 | 13680990 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS9 | 13680879 | 13680990 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon10 | 13681050 | 13681172 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS10 | 13681050 | 13681172 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon11 | 13682159 | 13682305 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS11 | 13682159 | 13682305 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon12 | 13682637 | 13682776 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS12 | 13682637 | 13682776 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon13 | 13683628 | 13683739 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS13 | 13683628 | 13683739 |
| chr_2 | g6031 | g6031.t1 | exon | g6031.t1.exon14 | 13683799 | 13683926 |
| chr_2 | g6031 | g6031.t1 | cds | g6031.t1.CDS14 | 13683799 | 13683926 |
| chr_2 | g6031 | g6031.t1 | TSS | g6031.t1 | NA | NA |
| chr_2 | g6031 | g6031.t1 | TTS | g6031.t1 | NA | NA |
Sequences
>g6031.t1 Gene=g6031 Length=1917
ATGGAAAAGTCAAATGATGTGAATGAGGAGACTCCGTACGTGAGTCATTACCCCGACACT
CGTCGCTATTCAATGGCAAGTGCAATGGCGACAAATAGACCGCAATATCATGTGGATAAT
CAAGGCTATAGTGTGAATACTACGCAAGAGGCAGACGAGAGTCAAGAGGGTGAAAATCGT
GATACAAAAATAAATATACCAACATCACAACCGCCTTTATACAGTGCGGCATTTGGTGAT
AAGTTTGGAATTGACAAGAAAATTAAGCGTTTTTCAATTCACGGCATGATGGAAGAGGAA
GGTAACGCACTTAAACCGCATCAGGAGATCGCTGCGCTCTCTTTAGAAGAGAAACGATTT
TTGCTTGCCGTCGAACGTGGTGATGTGGCGACAACGCGTAGAATGCTTCAGAAAGCACAA
GAGACGGGTTATATTAACATCAACTGTGTCGATCCTTTGGGTCGTTCAGCTCTACTTATG
GCAATCGATAACGAAAATTTGGAAATGGTTGAATTGCTCATAAATCATCGTGTTGACACT
AAAGATGCTTTATTACATGCCATCAGTGAAGAATTTGTAGAAGCTGTAGAAGTTTTGCTA
GATCATGAAGATTGTTCACATCGTGATGGAGAGCCGCATTCATGGGAAGCACTGCCGAGC
GAAACAGCGACATTTACACCAGACATTACGCCACTCATTTTAGCTGCCCATCGTGATAAT
TACGAGATAATCAAAATTTTATTAGATCGTGGATCGACATTACCATTGCCGCATGACGTT
AGATGCGGATGTGATGAGTGTGTAACATCGCGAATGGAAGATTCACTGCGACATTCTAGG
TCGCGAATAAATGCCTATCGGGCTCTTGCTAGCCCAAGTCTAATAGCTTTATCGTCAAAA
GATCCAATTTTAACTGCCTTTGAATTGTCATGGGAATTGCGACGCTTGAGTTTCCTCGAG
CATGAATTTAAGAATGAATATATGGAGTTAAGAAAACAGTGCCAAGATTTTGCTACAGCT
CTTCTTGATCATACACGTTCATCACATGAACTTGAAGTATTACTCAATCATGATCCAACG
GGTCCAGCATTTGAACATGGCGAACGTATGCATCTCAATCGTTTAAAACTCGCCGTAAAG
CTTCGTCAGAAAAAGTTTGTATCACATCCTAATGTGCAGCAGCTTCTGGCCTCGATCTGG
TATGAAGGTTTGCCGGGCTTCCGTAGGAAAAATATGGCCCTCCAATCACTTGAAATTTGT
CGAATTGGAATAATGTTTCCTCTATTTTCCGTGGCTTATGTTCTCGCACCACATTCATCG
TTTGGACAGACTATGAGAAAGCCATTTATCAAGTTCATCTGCCATAGTGCATCGTATTTT
ACATTTCTCTTTCTTTTAATGCTCGCATCACAACGTATTGAATCTGTGATAGACTTTAGT
AATGACGATAATAAAAATTTGAACAAATCAGAAGAGTTGACAAAGAGAGGAGCAGCACCA
ACATTTATCGAATGGATGATATTGTCATGGGTGAGCGGTTTGATATGGAGTGAGGTGAAA
CAGTTATGGGATGTAGGATTGAAAGAATATGTTCATGACATGTGGAATGTGATAGATTTT
ATAACAAACTCATTGTATGTCGCTACAGTGGCACTTCGTGTTGTCTCATACTATCAATTT
GTATCACATCCTAATGTGCAGCAGCTTCTGGCCTCGATCTGGTATGAAGGTTTGCCGGGC
TTCCGTAGGAAAAATATGGCCCTCCAATCACTTGAAATTTGTCGAATTGGAATAATGTTT
CCTCTATTTTCCGTGGCTTATGTTCTCGCACCACATTCATCGTTTGGACAGACTATGAGA
AAGCCATTTATCAAGTTCATCTGCCATAGTGCATCGTATTTTACATTTCTCTTGTAA
>g6031.t1 Gene=g6031 Length=638
MEKSNDVNEETPYVSHYPDTRRYSMASAMATNRPQYHVDNQGYSVNTTQEADESQEGENR
DTKINIPTSQPPLYSAAFGDKFGIDKKIKRFSIHGMMEEEGNALKPHQEIAALSLEEKRF
LLAVERGDVATTRRMLQKAQETGYININCVDPLGRSALLMAIDNENLEMVELLINHRVDT
KDALLHAISEEFVEAVEVLLDHEDCSHRDGEPHSWEALPSETATFTPDITPLILAAHRDN
YEIIKILLDRGSTLPLPHDVRCGCDECVTSRMEDSLRHSRSRINAYRALASPSLIALSSK
DPILTAFELSWELRRLSFLEHEFKNEYMELRKQCQDFATALLDHTRSSHELEVLLNHDPT
GPAFEHGERMHLNRLKLAVKLRQKKFVSHPNVQQLLASIWYEGLPGFRRKNMALQSLEIC
RIGIMFPLFSVAYVLAPHSSFGQTMRKPFIKFICHSASYFTFLFLLMLASQRIESVIDFS
NDDNKNLNKSEELTKRGAAPTFIEWMILSWVSGLIWSEVKQLWDVGLKEYVHDMWNVIDF
ITNSLYVATVALRVVSYYQFVSHPNVQQLLASIWYEGLPGFRRKNMALQSLEICRIGIMF
PLFSVAYVLAPHSSFGQTMRKPFIKFICHSASYFTFLL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g6031.t1 | Gene3D | G3DSA:1.25.40.20 | - | 116 | 289 | 8.0E-20 |
| 24 | g6031.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 47 | 70 | - |
| 6 | g6031.t1 | PANTHER | PTHR10117 | TRANSIENT RECEPTOR POTENTIAL CHANNEL | 110 | 557 | 9.1E-250 |
| 8 | g6031.t1 | PANTHER | PTHR10117:SF51 | TRANSIENT RECEPTOR POTENTIAL PROTEIN | 110 | 557 | 9.1E-250 |
| 5 | g6031.t1 | PANTHER | PTHR10117 | TRANSIENT RECEPTOR POTENTIAL CHANNEL | 559 | 637 | 9.1E-250 |
| 7 | g6031.t1 | PANTHER | PTHR10117:SF51 | TRANSIENT RECEPTOR POTENTIAL PROTEIN | 559 | 637 | 9.1E-250 |
| 1 | g6031.t1 | Pfam | PF12796 | Ankyrin repeats (3 copies) | 122 | 207 | 4.0E-7 |
| 3 | g6031.t1 | Pfam | PF00023 | Ankyrin repeat | 230 | 252 | 0.017 |
| 4 | g6031.t1 | Pfam | PF08344 | Transient receptor ion channel II | 262 | 324 | 6.0E-29 |
| 2 | g6031.t1 | Pfam | PF00520 | Ion transport protein | 458 | 605 | 1.8E-8 |
| 11 | g6031.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 418 | - |
| 16 | g6031.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 419 | 436 | - |
| 13 | g6031.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 437 | 447 | - |
| 17 | g6031.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 448 | 469 | - |
| 12 | g6031.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 470 | 592 | - |
| 15 | g6031.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 593 | 610 | - |
| 14 | g6031.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 611 | 638 | - |
| 25 | g6031.t1 | ProSiteProfiles | PS50297 | Ankyrin repeat region circular profile. | 227 | 259 | 9.304 |
| 26 | g6031.t1 | ProSiteProfiles | PS50088 | Ankyrin repeat profile. | 227 | 259 | 9.324 |
| 23 | g6031.t1 | SMART | SM00248 | ANK_2a | 153 | 182 | 0.044 |
| 22 | g6031.t1 | SMART | SM00248 | ANK_2a | 227 | 256 | 0.08 |
| 9 | g6031.t1 | SUPERFAMILY | SSF48403 | Ankyrin repeat | 122 | 252 | 1.07E-15 |
| 20 | g6031.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 414 | 436 | - |
| 19 | g6031.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 449 | 471 | - |
| 18 | g6031.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 535 | 557 | - |
| 21 | g6031.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 591 | 610 | - |
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:0070588 | calcium ion transmembrane transport | BP |
| GO:0016020 | membrane | CC |
| GO:0055085 | transmembrane transport | BP |
| GO:0005515 | protein binding | MF |
| GO:0005216 | ion channel activity | MF |
| GO:0005262 | calcium channel activity | MF |
| GO:0006811 | ion transport | BP |
KEGG
Orthology
- This transcript has been annotated with K04968 (transient receptor potential cation channel subfamily C member 5)
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