General information for g12133.t28
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Adenosylhomocysteinase.
Parent gene
- The parent gene g12133 is located on chr_1: 21225692..21227548 (- 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 | g12133 | g12133.t28 | TTS | g12133.t28 | 21223774 | 21223774 |
| chr_1 | g12133 | g12133.t28 | isoform | g12133.t28 | 21223873 | 21225692 |
| chr_1 | g12133 | g12133.t28 | exon | g12133.t28.exon1 | 21223873 | 21224076 |
| chr_1 | g12133 | g12133.t28 | cds | g12133.t28.CDS1 | 21224060 | 21224076 |
| chr_1 | g12133 | g12133.t28 | exon | g12133.t28.exon2 | 21224127 | 21224414 |
| chr_1 | g12133 | g12133.t28 | cds | g12133.t28.CDS2 | 21224127 | 21224414 |
| chr_1 | g12133 | g12133.t28 | exon | g12133.t28.exon3 | 21224471 | 21225011 |
| chr_1 | g12133 | g12133.t28 | cds | g12133.t28.CDS3 | 21224471 | 21225011 |
| chr_1 | g12133 | g12133.t28 | exon | g12133.t28.exon4 | 21225261 | 21225451 |
| chr_1 | g12133 | g12133.t28 | cds | g12133.t28.CDS4 | 21225261 | 21225451 |
| chr_1 | g12133 | g12133.t28 | exon | g12133.t28.exon5 | 21225668 | 21225692 |
| chr_1 | g12133 | g12133.t28 | cds | g12133.t28.CDS5 | 21225668 | 21225692 |
| chr_1 | g12133 | g12133.t28 | TSS | g12133.t28 | 21225730 | 21225730 |
Sequences
>g12133.t28 Gene=g12133 Length=1249
ATGTCTAAGCCGGCCTATAAAGTTGCTGATATAAGTCTTGCAGACCTCGGTCGCAAAGAA
ATCATCATTGCTGAAAATGAAATGCCCGGTTTGATGGCAATTCGTAAAAAGTATGGGCCA
CAAAAGATTTTGAAGGGAGCTCGCATTGCCGGCTGCTTGCATATGACAGTACAAACTGCA
GTTCTTATTGAAACACTCTTGGAATTGGGTGCTGAGGTTCAATGGAGCAGTTGTAATATT
TTCAGTACTCAAGACTCTGCTGCTGCTGCAATTGCGAAACGTGGTGTGCCTGTATATGCA
TGGAAAGGCGAAACTGAAGAGGAATACATATGGTGTATTGAACAAACACTTGTATTTCCA
AATAACGAGCCTCTTAATATGATTTTGGATGACGGCGGTGACTTAACAAATCTTGTTCAC
GAAAAATATCCACAATACTTGACTGGAATCAAGGGAATCAGCGAGGAGACAACGACTGGA
GTTCACAATCTTTACAACATGTTCAGGGAAAATAAACTTAAAGTTCCTGCAATCAATGTA
AATGATTCTGTTACCAAGAGCAAATTCGATAATCTCTATGGATGCCGTGAATCTTTAATT
GATGGAATTAAGCGTGCTACTGATGTCATGATTGCAGGAAAAGTGTGTGTTGTTGCTGGT
TATGGAGATGTTGGTAAAGGTTGTGCTCAAGCTCTTCGATCATTTGGCGGCAGAGTTATT
ATTACAGAAATTGATCCAATCAATGCTCTGCAAGCAGCAATGGAAGGATATGAAGTAACA
ACTATGGATGAAGCAGCCAGTGAAGGAAATATTTTTGTTACAACAACTGGTTGCACAGAC
ATCATTATGGGAGATCATTTTATGAAAATGAAAGATGATTCAATTGTTTGTAATATTGGT
CATTTTGATTGTGAAGTTAACGTAGCTTGGCTTGAAGAAAATGCAAAGGAAAAAGTCAAT
ATTAAGCCACAAGTTGATAGATTTGTTTTAAGTAACGGCAATCACATTATTCTTTTGGCT
GAAGGACGATTGGTTAATCTCGGTTACACTTGCCCAAATTGAGCTTTGGACTAAAGCTGA
AAAATATCCAGTTGGAGTTCATATGTTACCTAAGAAACTTGATGAGGAAGTCGCAGCACT
TCATCTTGAAAAATTGGGAGTAAAACTTACAAAACTCACAGAAAAGCAAGCTAAATATTT
GGGACTTTGTGCAGAAGGACCATTCAAACCTGAATACTATCGCTACTAA
>g12133.t28 Gene=g12133 Length=353
MSKPAYKVADISLADLGRKEIIIAENEMPGLMAIRKKYGPQKILKGARIAGCLHMTVQTA
VLIETLLELGAEVQWSSCNIFSTQDSAAAAIAKRGVPVYAWKGETEEEYIWCIEQTLVFP
NNEPLNMILDDGGDLTNLVHEKYPQYLTGIKGISEETTTGVHNLYNMFRENKLKVPAINV
NDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVCVVAGYGDVGKGCAQALRSFGGRVI
ITEIDPINALQAAMEGYEVTTMDEAASEGNIFVTTTGCTDIIMGDHFMKMKDDSIVCNIG
HFDCEVNVAWLEENAKEKVNIKPQVDRFVLSNGNHIILLAEGRLVNLGYTCPN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g12133.t28 | CDD | cd00401 | SAHH | 15 | 348 | 0.0 |
| 8 | g12133.t28 | Gene3D | G3DSA:3.40.50.1480 | - | 13 | 192 | 5.8E-173 |
| 7 | g12133.t28 | Gene3D | G3DSA:3.40.50.720 | - | 193 | 348 | 5.8E-173 |
| 3 | g12133.t28 | PANTHER | PTHR23420 | ADENOSYLHOMOCYSTEINASE | 5 | 349 | 6.2E-198 |
| 4 | g12133.t28 | PANTHER | PTHR23420:SF20 | ADENOSYLHOMOCYSTEINASE | 5 | 349 | 6.2E-198 |
| 1 | g12133.t28 | Pfam | PF05221 | S-adenosyl-L-homocysteine hydrolase | 6 | 141 | 2.9E-73 |
| 2 | g12133.t28 | Pfam | PF00670 | S-adenosyl-L-homocysteine hydrolase, NAD binding domain | 191 | 349 | 7.0E-84 |
| 11 | g12133.t28 | ProSitePatterns | PS00738 | S-adenosyl-L-homocysteine hydrolase signature 1. | 77 | 91 | - |
| 10 | g12133.t28 | ProSitePatterns | PS00739 | S-adenosyl-L-homocysteine hydrolase signature 2. | 213 | 229 | - |
| 13 | g12133.t28 | SMART | SM00996 | AdoHcyase_2 | 5 | 352 | 2.2E-210 |
| 12 | g12133.t28 | SMART | SM00997 | AdoHcyase_NAD_2 | 191 | 352 | 1.4E-108 |
| 6 | g12133.t28 | SUPERFAMILY | SSF52283 | Formate/glycerate dehydrogenase catalytic domain-like | 6 | 192 | 1.02E-90 |
| 5 | g12133.t28 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 191 | 349 | 2.88E-75 |
| 14 | g12133.t28 | TIGRFAM | TIGR00936 | ahcY: adenosylhomocysteinase | 6 | 348 | 3.4E-170 |
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:0004013 | adenosylhomocysteinase 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. There were no conditions that were differentially expressed