General information for g5466.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Carbonic anhydrase 15.
Parent gene
- The parent gene g5466 is located on chr_2: 9745748..9748201 (+ 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 | g5466 | g5466.t1 | TSS | g5466.t1 | 9745635 | 9745635 |
| chr_2 | g5466 | g5466.t1 | isoform | g5466.t1 | 9745748 | 9748201 |
| chr_2 | g5466 | g5466.t1 | exon | g5466.t1.exon1 | 9745748 | 9745864 |
| chr_2 | g5466 | g5466.t1 | cds | g5466.t1.CDS1 | 9745748 | 9745864 |
| chr_2 | g5466 | g5466.t1 | exon | g5466.t1.exon2 | 9746921 | 9747308 |
| chr_2 | g5466 | g5466.t1 | cds | g5466.t1.CDS2 | 9746921 | 9747308 |
| chr_2 | g5466 | g5466.t1 | exon | g5466.t1.exon3 | 9747685 | 9747855 |
| chr_2 | g5466 | g5466.t1 | cds | g5466.t1.CDS3 | 9747685 | 9747855 |
| chr_2 | g5466 | g5466.t1 | exon | g5466.t1.exon4 | 9747912 | 9748201 |
| chr_2 | g5466 | g5466.t1 | cds | g5466.t1.CDS4 | 9747912 | 9748201 |
| chr_2 | g5466 | g5466.t1 | TTS | g5466.t1 | 9748257 | 9748257 |
Sequences
>g5466.t1 Gene=g5466 Length=966
ATGAAGCTTTCAAAAATTCTTGCTGGAGTCATCATATTACTAGAAAGTTTTACCGTAATA
GCAAATCGTTTCGGATATTCAATAACAGAACAACTTATGTGGAAGAAAATGCACAAACAT
TGTAACGGCAGATATCAGTCACCAATCTCAATTCATTCCCGTCGTGCTATTCCATCTGCT
ATGCCAGCTATTGAATTCATTTATTATCACAATCCACTTCCTGGACCATTGACGATTCAC
AACAATGGACAATCGGTGTCACTTCTATCACAGCCATTTCAAAATTCGACAAAATATCGT
CAACCGTACATTTTTGGTGGTAAATTACGGAATGAGTATTATTATCATGCTCTACATTTT
CATTGGGGCGATAAGAACTCAAGGGGTGCAGAACATGTATTGAATGACATACGATATCCA
CTAGAAATGCACATGATACATGTTAATGCAAAATATGGCAATATTGAAGAGGCGTTAAAC
CACAAAGATGGATTAGCTGTGCTTGCATTTTTTTATCAGATTAGAGAGAATTTATCAAAT
GGCGAAGAGATTGATAACATTGTCAGACATTTCGATGACCTAAATGAACTAACCGATACT
GTGACTTTGCCTTATACATTTTCATTGCAATCGTTGATTGGTAACATAAATACAGATCGA
TTCTACACTTATCGAGGGAGCTTAACAACACCATCATGCAGAGAAGCCGTCACATGGATT
ATATTTCCTGATACAATTTCCATTTCCTTGAGTCAGATGTCAAAATTTCGTTCTTTGTTG
AATGGCATTGATGGTCTGTTACTTGTTGACAATTATCGACACCTGCAGCCAATTCGGAAT
CGAAAAATCTACCTTCGTACACTTTCGTCACGTGCTATTGAGTTGGAAAAACTTGTTGAG
ATAGAGTGGAATGCAAATAATGATGGTGACGAAGATGAGGCGACAGAGTGGTTCTATAGC
ACTTGA
>g5466.t1 Gene=g5466 Length=321
MKLSKILAGVIILLESFTVIANRFGYSITEQLMWKKMHKHCNGRYQSPISIHSRRAIPSA
MPAIEFIYYHNPLPGPLTIHNNGQSVSLLSQPFQNSTKYRQPYIFGGKLRNEYYYHALHF
HWGDKNSRGAEHVLNDIRYPLEMHMIHVNAKYGNIEEALNHKDGLAVLAFFYQIRENLSN
GEEIDNIVRHFDDLNELTDTVTLPYTFSLQSLIGNINTDRFYTYRGSLTTPSCREAVTWI
IFPDTISISLSQMSKFRSLLNGIDGLLLVDNYRHLQPIRNRKIYLRTLSSRAIELEKLVE
IEWNANNDGDEDEATEWFYST
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g5466.t1 | CDD | cd00326 | alpha_CA | 43 | 284 | 1.89583E-76 |
| 5 | g5466.t1 | Gene3D | G3DSA:3.10.200.10 | Carbonic Anhydrase II | 21 | 299 | 7.2E-77 |
| 2 | g5466.t1 | PANTHER | PTHR18952:SF137 | CAIX-RELATED | 13 | 289 | 4.7E-95 |
| 3 | g5466.t1 | PANTHER | PTHR18952 | CARBONIC ANHYDRASE | 13 | 289 | 4.7E-95 |
| 1 | g5466.t1 | Pfam | PF00194 | Eukaryotic-type carbonic anhydrase | 24 | 285 | 3.8E-76 |
| 7 | g5466.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 8 | g5466.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 9 | g5466.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 14 | - |
| 10 | g5466.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 21 | - |
| 6 | g5466.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 321 | - |
| 14 | g5466.t1 | ProSiteProfiles | PS51144 | Alpha-carbonic anhydrases profile. | 22 | 287 | 57.645 |
| 13 | g5466.t1 | SMART | SM01057 | Carb_anhydrase_2a | 24 | 287 | 1.5E-87 |
| 4 | g5466.t1 | SUPERFAMILY | SSF51069 | Carbonic anhydrase | 24 | 285 | 9.42E-71 |
| 12 | g5466.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5466/g5466.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5466.t1.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 transcript has been annotated with K01672 (carbonic anhydrase)
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