General information for g2880.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Carbonic anhydrase 2.
Parent gene
- The parent gene g2880 is located on chr_3: 20866513..20871838 (+ 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_3 | g2880 | g2880.t1 | isoform | g2880.t1 | 20865212 | 20866513 |
| chr_3 | g2880 | g2880.t1 | exon | g2880.t1.exon1 | 20865212 | 20865302 |
| chr_3 | g2880 | g2880.t1 | cds | g2880.t1.CDS1 | 20865212 | 20865302 |
| chr_3 | g2880 | g2880.t1 | exon | g2880.t1.exon2 | 20865362 | 20865979 |
| chr_3 | g2880 | g2880.t1 | cds | g2880.t1.CDS2 | 20865362 | 20865979 |
| chr_3 | g2880 | g2880.t1 | exon | g2880.t1.exon3 | 20866057 | 20866118 |
| chr_3 | g2880 | g2880.t1 | cds | g2880.t1.CDS3 | 20866057 | 20866118 |
| chr_3 | g2880 | g2880.t1 | exon | g2880.t1.exon4 | 20866172 | 20866513 |
| chr_3 | g2880 | g2880.t1 | cds | g2880.t1.CDS4 | 20866172 | 20866513 |
| chr_3 | g2880 | g2880.t1 | TSS | g2880.t1 | NA | NA |
| chr_3 | g2880 | g2880.t1 | TTS | g2880.t1 | NA | NA |
Sequences
>g2880.t1 Gene=g2880 Length=1113
ATGGTGCCAAATATTTTGAGACTTTTAATAGTTTCTTTCTTCACTTTACAAACTCTAACA
TATGAAACGAAAGAAGGATCATATAAAAAAGTATCTTCTTATTCAAACCAATTTTATGGG
TCATCAGCCACAACGAATAATTATATTTTTCACGAGAAAGAAAATATACCAGCATTATAT
TACAAAAAGAATTTTAAAAACTATAAACCATTTTACAATCAAAAGAAAGCAAGCAGTTAT
GTGAATAACGACTTTTATTTTCGAGATGAGGATGATGAAAGTAACAGCATTGAATCTGAG
GAAAAAAAATTTTCTTATGATGAAAATGATGATGGACCAGCAATTTATGGACCTTCAAAT
TGGTATAAGATAAATAAGCAATGCAATGGAAATTATCAAAGCCCTATAGCTATTGACATT
TTCAACACTTCGGGGATTAAATTTTCACCACGACTTTATTTCGAAGGGATTGATATAAGA
CCATCATCAATGAAAATAGAAAATAACGGACATTCAATGAAAATCACTTTTAATCTACCA
AATAATCAGCATATTAGAATTATAGGAGGTCCATTAGAAAATATTCCATATATTCTTGAT
AGTTTTCATTGGCATTGGGGAGCTATTGATAAAAGTGGAAGCGAGCATGTATTGAGAGGT
AGAAGATACTCATCTGAACTACATTTAGTGTTTTACAATTCACAATATGGAAATTTTAAC
ACTGCTTCAACCTCTTCTAAAGGCTTAGCGGTCCTTGGAATTTTATATGATGTTGATAGT
CAACAAAATGGTTATATTAATCCTTGGGCAACAATCATCCATCGTGTTCTTAACGCAAAA
AGCACTTACGTGGAATATCAAAATAACTTTACTCTCAGAGATCTCATCAGAACAGACCAA
TTTAAATATTTTACTTATAAAGGTTCACTTACAACACCAAATTGTACTGAAAATGTTACA
TGGTTGATAAATTCAAAACCTATTCCTATAGCACCAGCTGAACTTAGAGAATTTCGTAAG
CTTAGAAATGAAAAAGGAGAGCAAATGTTTCATAATTTTCGACCTCTTCAGTACTCCAAA
TATGATCGGAAAGTTTTAATTTATGCACAATAA
>g2880.t1 Gene=g2880 Length=370
MVPNILRLLIVSFFTLQTLTYETKEGSYKKVSSYSNQFYGSSATTNNYIFHEKENIPALY
YKKNFKNYKPFYNQKKASSYVNNDFYFRDEDDESNSIESEEKKFSYDENDDGPAIYGPSN
WYKINKQCNGNYQSPIAIDIFNTSGIKFSPRLYFEGIDIRPSSMKIENNGHSMKITFNLP
NNQHIRIIGGPLENIPYILDSFHWHWGAIDKSGSEHVLRGRRYSSELHLVFYNSQYGNFN
TASTSSKGLAVLGILYDVDSQQNGYINPWATIIHRVLNAKSTYVEYQNNFTLRDLIRTDQ
FKYFTYKGSLTTPNCTENVTWLINSKPIPIAPAELREFRKLRNEKGEQMFHNFRPLQYSK
YDRKVLIYAQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g2880.t1 | CDD | cd00326 | alpha_CA | 130 | 366 | 1.92366E-67 |
| 6 | g2880.t1 | Gene3D | G3DSA:3.10.200.10 | Carbonic Anhydrase II | 94 | 367 | 8.3E-70 |
| 2 | g2880.t1 | PANTHER | PTHR18952 | CARBONIC ANHYDRASE | 116 | 359 | 5.2E-68 |
| 3 | g2880.t1 | PANTHER | PTHR18952:SF216 | CARBONIC ANHYDRASE 2, ISOFORM A | 116 | 359 | 5.2E-68 |
| 1 | g2880.t1 | Pfam | PF00194 | Eukaryotic-type carbonic anhydrase | 105 | 365 | 8.5E-72 |
| 8 | g2880.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 9 | g2880.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 10 | g2880.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 16 | - |
| 11 | g2880.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 20 | - |
| 7 | g2880.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 370 | - |
| 13 | g2880.t1 | ProSitePatterns | PS00162 | Alpha-carbonic anhydrases signature. | 214 | 230 | - |
| 15 | g2880.t1 | ProSiteProfiles | PS51144 | Alpha-carbonic anhydrases profile. | 102 | 370 | 57.772 |
| 14 | g2880.t1 | SMART | SM01057 | Carb_anhydrase_2a | 104 | 369 | 6.9E-75 |
| 4 | g2880.t1 | SUPERFAMILY | SSF51069 | Carbonic anhydrase | 114 | 359 | 1.83E-65 |
| 5 | g2880.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.
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.
