General information for g5915.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Carbonic anhydrase 6.
Parent gene
- The parent gene g5915 is located on chr_2: 12842292..12843600 (- 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 | g5915 | g5915.t1 | isoform | g5915.t1 | 12842292 | 12843600 |
| chr_2 | g5915 | g5915.t1 | exon | g5915.t1.exon1 | 12842292 | 12842498 |
| chr_2 | g5915 | g5915.t1 | cds | g5915.t1.CDS1 | 12842292 | 12842498 |
| chr_2 | g5915 | g5915.t1 | exon | g5915.t1.exon2 | 12842559 | 12842587 |
| chr_2 | g5915 | g5915.t1 | cds | g5915.t1.CDS2 | 12842559 | 12842587 |
| chr_2 | g5915 | g5915.t1 | exon | g5915.t1.exon3 | 12842655 | 12842962 |
| chr_2 | g5915 | g5915.t1 | cds | g5915.t1.CDS3 | 12842655 | 12842962 |
| chr_2 | g5915 | g5915.t1 | exon | g5915.t1.exon4 | 12843048 | 12843181 |
| chr_2 | g5915 | g5915.t1 | cds | g5915.t1.CDS4 | 12843048 | 12843181 |
| chr_2 | g5915 | g5915.t1 | exon | g5915.t1.exon5 | 12843235 | 12843377 |
| chr_2 | g5915 | g5915.t1 | cds | g5915.t1.CDS5 | 12843235 | 12843377 |
| chr_2 | g5915 | g5915.t1 | exon | g5915.t1.exon6 | 12843441 | 12843600 |
| chr_2 | g5915 | g5915.t1 | cds | g5915.t1.CDS6 | 12843441 | 12843600 |
| chr_2 | g5915 | g5915.t1 | TSS | g5915.t1 | NA | NA |
| chr_2 | g5915 | g5915.t1 | TTS | g5915.t1 | NA | NA |
Sequences
>g5915.t1 Gene=g5915 Length=981
ATGTGGAGATCGAAAATTAATATTTCTTTTGGATTTTTAATTACTTCATTTGTCACATCA
CAGGATTTTAATTATCCAAAATTACCTTCAGCACGTCAACTATCAATGAATGGTAGCTTA
AACAACATGACGTATTCGTATAATAATGAAGATACTCGTGGCCCATCAAATTGGAGAATA
TTTAATGCAACATGTGGAGGTTTTTCTCAAAGTCCCATCAATATTGAAACATCAAATGTT
TGGAGAGGAAAAGCGCCTCCATTATTTATGGACTATTTCACAAAGCCTGTAGTTGCCATT
ACACTTACAAATACTGGCCATTCGGTTAATTATAGACTAAAGTTTATAGATTCAGCTCCC
AATCGGTTGATTTGGAATGGGATGAACGGAAAAACTTACATTTTCGATTCGTTACACATT
CATTGGGGAAATTCTTGTGTTGGTGGAAGCGAACATACAATCAATGGCCATCGATATTTG
GCAGAAATTCATTTAGTTCATTTTAATGCGAAATATAAGTATTTAGAAGCAGCAGCATTA
CAACAAGACGGTTTAGCTGTTATTGGTATTTTTCTTGAGACCGCAGATGAAGCAAATAAT
GACGGAAGTAACAACAATAAATTTGTTAAATTTCTCAATAATGTTAGACAACCGGGACAG
ACTTATCTCATTACGGACACTAATGGAATATTCACTGTGCAAGAACTTATCAAATATGAA
ATCAGAGAATATTATAGCTATAAAGGTTCTTTAACTACACCACCTTGTTCTGAATCTGTA
AGATGGATTGTTGCAAAAAGACCTGTAAGAATTTATCCTTCAGAGTGGAATTTGTTGAAT
CAAGTTATCTCATTTGATGGAAGATCCATGACTGGGAATAATCGTCCTGTTCAACAAATA
AATGGCCGTAATGTCTACGAATACAATTATGTTGGAAATTATAGACATAAATTTGATAGA
ATTTTATGGAATATACCATAA
>g5915.t1 Gene=g5915 Length=326
MWRSKINISFGFLITSFVTSQDFNYPKLPSARQLSMNGSLNNMTYSYNNEDTRGPSNWRI
FNATCGGFSQSPINIETSNVWRGKAPPLFMDYFTKPVVAITLTNTGHSVNYRLKFIDSAP
NRLIWNGMNGKTYIFDSLHIHWGNSCVGGSEHTINGHRYLAEIHLVHFNAKYKYLEAAAL
QQDGLAVIGIFLETADEANNDGSNNNKFVKFLNNVRQPGQTYLITDTNGIFTVQELIKYE
IREYYSYKGSLTTPPCSESVRWIVAKRPVRIYPSEWNLLNQVISFDGRSMTGNNRPVQQI
NGRNVYEYNYVGNYRHKFDRILWNIP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g5915.t1 | CDD | cd00326 | alpha_CA | 67 | 306 | 2.68591E-73 |
| 6 | g5915.t1 | Gene3D | G3DSA:3.10.200.10 | Carbonic Anhydrase II | 41 | 318 | 1.9E-72 |
| 2 | g5915.t1 | PANTHER | PTHR18952 | CARBONIC ANHYDRASE | 41 | 308 | 1.2E-57 |
| 3 | g5915.t1 | PANTHER | PTHR18952:SF216 | CARBONIC ANHYDRASE 2, ISOFORM A | 41 | 308 | 1.2E-57 |
| 1 | g5915.t1 | Pfam | PF00194 | Eukaryotic-type carbonic anhydrase | 46 | 307 | 4.8E-71 |
| 8 | g5915.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 9 | g5915.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 10 | g5915.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 15 | - |
| 11 | g5915.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 7 | g5915.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 326 | - |
| 13 | g5915.t1 | ProSitePatterns | PS00162 | Alpha-carbonic anhydrases signature. | 150 | 166 | - |
| 15 | g5915.t1 | ProSiteProfiles | PS51144 | Alpha-carbonic anhydrases profile. | 43 | 309 | 60.727 |
| 14 | g5915.t1 | SMART | SM01057 | Carb_anhydrase_2a | 47 | 309 | 9.3E-71 |
| 4 | g5915.t1 | SUPERFAMILY | SSF51069 | Carbonic anhydrase | 43 | 308 | 7.98E-67 |
| 5 | g5915.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5915/g5915.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5915.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