General information for g5955.t11
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Carbonic anhydrase 5B, mitochondrial.
Parent gene
- The parent gene g5955 is located on chr_2: 13014880..13015645 (+ 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 | g5955 | g5955.t11 | TSS | g5955.t11 | 13008557 | 13008557 |
| chr_2 | g5955 | g5955.t11 | isoform | g5955.t11 | 13008875 | 13015645 |
| chr_2 | g5955 | g5955.t11 | exon | g5955.t11.exon1 | 13008875 | 13008908 |
| chr_2 | g5955 | g5955.t11 | cds | g5955.t11.CDS1 | 13008906 | 13008908 |
| chr_2 | g5955 | g5955.t11 | exon | g5955.t11.exon2 | 13014867 | 13015645 |
| chr_2 | g5955 | g5955.t11 | cds | g5955.t11.CDS2 | 13014867 | 13015259 |
| chr_2 | g5955 | g5955.t11 | TTS | g5955.t11 | 13015608 | 13015608 |
Sequences
>g5955.t11 Gene=g5955 Length=813
ATGAGCAACGATTGGGGATATACAACCAAAAATGGTCGGTGAAAAACATGAAGAATTGGA
TAAAATAGCTCGTTTGATGCCATATATTTCACACAAGGGAGATCGAGTGACATTGAATTC
ACTTGATATTGCAAAATTGCTACCAGAAAACCGAGCATATTGGACATATGAAGGTTCACT
GACTACACCTCCATTTAATGAAAGTGTCACATGGATTTTATTTAAAGAACCAATGTATGT
CTCACAAGAACAATTAGATTTATTCCGTGAGTTACGTCGATATGATGTGAATGAAGAATG
CCCATATGATGAGCAAAATTGGCTTGTTTATGACTCAGTTGAAGAAAAAGCTGGAAAAAT
TGTCAACAATTTCAGACCACCACTACCACTTGGAAATCGTGAACTACGCGAAACTGGAGA
ACACTAAATAATTATCTACATAGAGATGCTTTAAGCTATATTGCAACACTATTTTGTAAT
TTTAATCACAGGAAATTTTCAATATGATGAAAAATATTATTGCCTTTATGATTTGTTGAA
CAAATGTAATAAAAAAAGTTGTTTTCCTATAAAACACCTGTTTAAATTTTAGCAATTGAC
CTTTAATAAAGGAATTAACAGTTAACTTGAGGCAAATGCATACAATATATATATTGAGAG
AAAGAATGAGAAAAGGTGCTAGCTACCTATTATTGTATAGAAATGTAGACTTTATTATGA
CGATATTGAATTAATCGAATAAAAATTGTTTTATGACTTTTCATTTTTATTCTAAATTTC
GAAAAATCTACTTAACTAGATAATTTTAATTCC
>g5955.t11 Gene=g5955 Length=131
MVGEKHEELDKIARLMPYISHKGDRVTLNSLDIAKLLPENRAYWTYEGSLTTPPFNESVT
WILFKEPMYVSQEQLDLFRELRRYDVNEECPYDEQNWLVYDSVEEKAGKIVNNFRPPLPL
GNRELRETGEH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g5955.t11 | CDD | cd00326 | alpha_CA | 3 | 126 | 0.0000000 |
| 6 | g5955.t11 | Gene3D | G3DSA:3.10.200.10 | Carbonic Anhydrase II | 1 | 130 | 0.0000000 |
| 2 | g5955.t11 | PANTHER | PTHR18952 | CARBONIC ANHYDRASE | 2 | 105 | 0.0000000 |
| 3 | g5955.t11 | PANTHER | PTHR18952:SF120 | CARBONIC ANHYDRASE 2 | 2 | 105 | 0.0000000 |
| 1 | g5955.t11 | Pfam | PF00194 | Eukaryotic-type carbonic anhydrase | 2 | 126 | 0.0000000 |
| 7 | g5955.t11 | ProSiteProfiles | PS51144 | Alpha-carbonic anhydrases profile. | 1 | 129 | 26.1920000 |
| 5 | g5955.t11 | SMART | SM01057 | Carb_anhydrase_2a | 1 | 129 | 0.0000084 |
| 4 | g5955.t11 | SUPERFAMILY | SSF51069 | Carbonic anhydrase | 2 | 126 | 0.0000000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5955/g5955.t11; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5955.t11.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0008270 | zinc ion binding | MF |
| GO:0004089 | carbonate dehydratase activity | 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.
