Gene loci information

Transcript annotation

  • This transcript has been annotated as Adenosylhomocysteinase.

Parent gene

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.t18 TTS g12133.t18 21223774 21223774
chr_1 g12133 g12133.t18 isoform g12133.t18 21223873 21224997
chr_1 g12133 g12133.t18 exon g12133.t18.exon1 21223873 21224414
chr_1 g12133 g12133.t18 cds g12133.t18.CDS1 21224399 21224414
chr_1 g12133 g12133.t18 exon g12133.t18.exon2 21224464 21224997
chr_1 g12133 g12133.t18 cds g12133.t18.CDS2 21224464 21224849
chr_1 g12133 g12133.t18 TSS g12133.t18 21225730 21225730

Sequences

>g12133.t18 Gene=g12133 Length=1076
TTGTAATATTTTCAGTACTCAAGACTCTGCTGCTGCTGCAATTGCGAAACGTGGTGTGCC
TGTATATGCATGGAAAGGCGAAACTGAAGAGGAATACATATGGTGTATTGAACAAACACT
TGTATTTCCAAATAACGAGCCTCTTAATATGATTTTGGATGACGGCGGTGACTTAACAAA
TCTTGTTCACGAAAAATATCCACAATACTTGACTGGAATCAAGGGAATCAGCGAGGAGAC
AACGACTGGAGTTCACAATCTTTACAACATGTTCAGGGAAAATAAACTTAAAGTTCCTGC
AATCAATGTAAATGATTCTGTTACCAAGAGCAAATTCGATAATCTCTATGGATGCCGTGA
ATCTTTAATTGATGGAATTAAGCGTGCTACTGATGTCATGATTGCAGGAAAAGTGTGTGT
TGTTGCTGGTTATGGAGATGTTGGTAAAGGTTGTGCTCAAGCTCTTCGATCATTTGGCGG
CAGAGTTATTATTACAGAAATTGATCCAATCAATGCTCTGCAAGCAGGTCAGTTCAATGG
AAGGATATGAAGTAACAACTATGGATGAAGCAGCCAGTGAAGGAAATATTTTTGTTACAA
CAACTGGTTGCACAGACATCATTATGGGAGATCATTTTATGAAAATGAAAGATGATTCAA
TTGTTTGTAATATTGGTCATTTTGATTGTGAAGTTAACGTAGCTTGGCTTGAAGAAAATG
CAAAGGAAAAAGTCAATATTAAGCCACAAGTTGATAGATTTGTTTTAAGTAACGGCAATC
ACATTATTCTTTTGGCTGAAGGACGATTGGTTAATCTCGGTTGTGCCAAGGGCCATCCAT
CGTTTGTGATGTCAAATTCTTTCTGTAACCAGACACTTGCCCAAATTGAGCTTTGGACTA
AAGCTGAAAAATATCCAGTTGGAGTTCATATGTTACCTAAGAAACTTGATGAGGAAGTCG
CAGCACTTCATCTTGAAAAATTGGGAGTAAAACTTACAAAACTCACAGAAAAGCAAGCTA
AATATTTGGGACTTTGTGCAGAAGGACCATTCAAACCTGAATACTATCGCTACTAA

>g12133.t18 Gene=g12133 Length=133
MILDDGGDLTNLVHEKYPQYLTGIKGISEETTTGVHNLYNMFRENKLKVPAINVNDSVTK
SKFDNLYGCRESLIDGIKRATDVMIAGKVCVVAGYGDVGKGCAQALRSFGGRVIITEIDP
INALQAGQFNGRI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g12133.t18 Gene3D G3DSA:3.40.50.1480 - 1 70 1.4E-31
10 g12133.t18 Gene3D G3DSA:3.40.50.720 - 71 130 4.5E-27
3 g12133.t18 PANTHER PTHR23420 ADENOSYLHOMOCYSTEINASE 1 127 4.2E-72
4 g12133.t18 PANTHER PTHR23420:SF20 ADENOSYLHOMOCYSTEINASE 1 127 4.2E-72
1 g12133.t18 Pfam PF05221 S-adenosyl-L-homocysteine hydrolase 15 64 1.9E-21
2 g12133.t18 Pfam PF00670 S-adenosyl-L-homocysteine hydrolase, NAD binding domain 65 126 1.7E-34
9 g12133.t18 ProSitePatterns PS00739 S-adenosyl-L-homocysteine hydrolase signature 2. 87 103 -
8 g12133.t18 SMART SM00996 AdoHcyase_2 1 132 5.7E-4
7 g12133.t18 SMART SM00997 AdoHcyase_NAD_2 65 133 8.3E-10
6 g12133.t18 SUPERFAMILY SSF52283 Formate/glycerate dehydrogenase catalytic domain-like 1 64 3.15E-26
5 g12133.t18 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 65 127 1.97E-31

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