General information for g11830.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative H(+)/Cl(-) exchange transporter 3.
Parent gene
- The parent gene g11830 is located on chr_1: 18615954..18617265 (- 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 | g11830 | g11830.t5 | isoform | g11830.t5 | 18613779 | 18615084 |
| chr_1 | g11830 | g11830.t5 | exon | g11830.t5.exon1 | 18613779 | 18614512 |
| chr_1 | g11830 | g11830.t5 | cds | g11830.t5.CDS1 | 18614422 | 18614512 |
| chr_1 | g11830 | g11830.t5 | exon | g11830.t5.exon2 | 18614595 | 18614701 |
| chr_1 | g11830 | g11830.t5 | cds | g11830.t5.CDS2 | 18614595 | 18614701 |
| chr_1 | g11830 | g11830.t5 | exon | g11830.t5.exon3 | 18614762 | 18614868 |
| chr_1 | g11830 | g11830.t5 | cds | g11830.t5.CDS3 | 18614762 | 18614868 |
| chr_1 | g11830 | g11830.t5 | exon | g11830.t5.exon4 | 18614923 | 18615084 |
| chr_1 | g11830 | g11830.t5 | cds | g11830.t5.CDS4 | 18614923 | 18615049 |
| chr_1 | g11830 | g11830.t5 | TSS | g11830.t5 | NA | NA |
| chr_1 | g11830 | g11830.t5 | TTS | g11830.t5 | NA | NA |
Sequences
>g11830.t5 Gene=g11830 Length=1110
GTAATGAAGGATTAGCAGTTATAACTCAAGATTCCATGACAATAGATGATATTGAAGTTC
TTCTCAAAGACACTGAACATAATGGATATCCTGTTGTTGTTTCACGTGAAAATCAATATT
TAGTAGGATTTGTTTTAAGAAGAGACTTGAATTTGGCATTAGCAAATGCAAAAAGAAATT
TCGATGGAATTTCTGGTCAATCATTAGTGATATTCACTAATAGTAGCAGTGTGCAAAATC
TTGGCCCTGCACCACTTAAATTGAAAAAAATATTGGATATGGCACCTATTACAGTAACTG
ATCAAACTCCTATGGAAACAGTTGTAGATATGTTTAGAAAGTTAGGCTTACGACAAACTT
TAGTCACTCATAACGGTCGTCTATTGGGTGTAATAACAAAGAAAGATGTTTTGAGACATG
TTAAACAAATGGATAATGAAGATCCAACTACAATATTATTCAATTAAACACATCAATAAC
TTTTTTTTCTGTTATCAATGATAAAACTAATTGAAAGTTTTCCATAAGCTTATAATAATA
GAATGTGACAGAGAAAGTAAAAAAGAACCTATATTTATTTATTTTTACTATAATTTCAAT
TTTTTTATATTTTTGCATGTTTTTCTGTTTAATGTATTTGTAGCAAAAAAAGTATATCTG
ACTGAAAGTGATAATGTTTAAACTTTAAAGATACATACAAATGAAATTAAAATTTCCAAA
AGAAACATAAGAAAGATCAATGTACATTATGATAATTAATCTACAGATCGAATAGTTCCA
ATTAATCTAATACTAGTTGTATACAAAAAAAATATATCTATAATAAAAAGTATGTTTCAA
ACAAAACGTTTTCGCATCAAATTTTTCTTTTAATTTATTCCTATGAATAAAAAGAAATGT
ATCTTCGTATGCATCCATCCATTTTACTCAACATGACGACAATCATTTATTAATAAACAA
ATTCAGACACGAGTTTGATTTAAATGAATGAAATGATTCAAACATCCTACATATATAATT
TCTTATTAGATGTCTAATTCAAGGATTGTCATACAATCGTCATTATAATTATATAATTTC
GTCATTATGTAAAGATCTCGAACTCGAATC
>g11830.t5 Gene=g11830 Length=143
MTIDDIEVLLKDTEHNGYPVVVSRENQYLVGFVLRRDLNLALANAKRNFDGISGQSLVIF
TNSSSVQNLGPAPLKLKKILDMAPITVTDQTPMETVVDMFRKLGLRQTLVTHNGRLLGVI
TKKDVLRHVKQMDNEDPTTILFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g11830.t5 | CDD | cd04591 | CBS_pair_voltage-gated_CLC_euk_bac | 1 | 128 | 0.0000000 |
| 8 | g11830.t5 | Gene3D | G3DSA:3.10.580.20 | - | 1 | 84 | 0.0000000 |
| 9 | g11830.t5 | Gene3D | G3DSA:3.90.1280.20 | - | 85 | 132 | 0.0000000 |
| 3 | g11830.t5 | PANTHER | PTHR45711:SF7 | H(+)/CL(-) EXCHANGE TRANSPORTER 5 | 1 | 143 | 0.0000000 |
| 4 | g11830.t5 | PANTHER | PTHR45711 | CHLORIDE CHANNEL PROTEIN | 1 | 143 | 0.0000000 |
| 2 | g11830.t5 | Pfam | PF00571 | CBS domain | 1 | 43 | 0.0016000 |
| 1 | g11830.t5 | Pfam | PF00571 | CBS domain | 83 | 129 | 0.0000001 |
| 11 | g11830.t5 | ProSiteProfiles | PS51371 | CBS domain profile. | 1 | 51 | 7.3390000 |
| 10 | g11830.t5 | ProSiteProfiles | PS51371 | CBS domain profile. | 80 | 138 | 10.7480000 |
| 7 | g11830.t5 | SMART | SM00116 | cbs_1 | 1 | 43 | 8.0000000 |
| 6 | g11830.t5 | SMART | SM00116 | cbs_1 | 83 | 130 | 0.0000000 |
| 5 | g11830.t5 | SUPERFAMILY | SSF54631 | CBS-domain pair | 1 | 129 | 0.0000000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
