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.t17 TTS g12133.t17 21223774 21223774
chr_1 g12133 g12133.t17 isoform g12133.t17 21223873 21224913
chr_1 g12133 g12133.t17 exon g12133.t17.exon1 21223873 21224371
chr_1 g12133 g12133.t17 cds g12133.t17.CDS1 21223873 21224371
chr_1 g12133 g12133.t17 exon g12133.t17.exon2 21224464 21224913
chr_1 g12133 g12133.t17 cds g12133.t17.CDS2 21224464 21224849
chr_1 g12133 g12133.t17 TSS g12133.t17 21225730 21225730

Sequences

>g12133.t17 Gene=g12133 Length=949
TGAAGAGGAATACATATGGTGTATTGAACAAACACTTGTATTTCCAAATAACGAGCCTCT
TAATATGATTTTGGATGACGGCGGTGACTTAACAAATCTTGTTCACGAAAAATATCCACA
ATACTTGACTGGAATCAAGGGAATCAGCGAGGAGACAACGACTGGAGTTCACAATCTTTA
CAACATGTTCAGGGAAAATAAACTTAAAGTTCCTGCAATCAATGTAAATGATTCTGTTAC
CAAGAGCAAATTCGATAATCTCTATGGATGCCGTGAATCTTTAATTGATGGAATTAAGCG
TGCTACTGATGTCATGATTGCAGGAAAAGTGTGTGTTGTTGCTGGTTATGGAGATGTTGG
TAAAGGTTGTGCTCAAGCTCTTCGATCATTTGGCGGCAGAGTTATTATTACAGAAATTGA
TCCAATCAATGCTCTGCAAGCAGGTCAGTTTGAAGGAAATATTTTTGTTACAACAACTGG
TTGCACAGACATCATTATGGGAGATCATTTTATGAAAATGAAAGATGATTCAATTGTTTG
TAATATTGGTCATTTTGATTGTGAAGTTAACGTAGCTTGGCTTGAAGAAAATGCAAAGGA
AAAAGTCAATATTAAGCCACAAGTTGATAGATTTGTTTTAAGTAACGGCAATCACATTAT
TCTTTTGGCTGAAGGACGATTGGTTAATCTCGGTTGTGCCAAGGGCCATCCATCGTTTGT
GATGTCAAATTCTTTCTGTAACCAGACACTTGCCCAAATTGAGCTTTGGACTAAAGCTGA
AAAATATCCAGTTGGAGTTCATATGTTACCTAAGAAACTTGATGAGGAAGTCGCAGCACT
TCATCTTGAAAAATTGGGAGTAAAACTTACAAAACTCACAGAAAAGCAAGCTAAATATTT
GGGACTTTGTGCAGAAGGACCATTCAAACCTGAATACTATCGCTACTAA

>g12133.t17 Gene=g12133 Length=294
MILDDGGDLTNLVHEKYPQYLTGIKGISEETTTGVHNLYNMFRENKLKVPAINVNDSVTK
SKFDNLYGCRESLIDGIKRATDVMIAGKVCVVAGYGDVGKGCAQALRSFGGRVIITEIDP
INALQAGQFEGNIFVTTTGCTDIIMGDHFMKMKDDSIVCNIGHFDCEVNVAWLEENAKEK
VNIKPQVDRFVLSNGNHIILLAEGRLVNLGCAKGHPSFVMSNSFCNQTLAQIELWTKAEK
YPVGVHMLPKKLDEEVAALHLEKLGVKLTKLTEKQAKYLGLCAEGPFKPEYYRY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g12133.t17 CDD cd00401 SAHH 1 281 0.0
11 g12133.t17 Gene3D G3DSA:3.40.50.1480 - 1 70 7.5E-31
10 g12133.t17 Gene3D G3DSA:3.40.50.720 - 71 210 2.8E-60
12 g12133.t17 Gene3D G3DSA:3.40.50.1480 - 211 294 2.5E-40
3 g12133.t17 PANTHER PTHR23420 ADENOSYLHOMOCYSTEINASE 1 294 1.3E-162
4 g12133.t17 PANTHER PTHR23420:SF20 ADENOSYLHOMOCYSTEINASE 1 294 1.3E-162
1 g12133.t17 Pfam PF05221 S-adenosyl-L-homocysteine hydrolase 15 293 2.2E-62
2 g12133.t17 Pfam PF00670 S-adenosyl-L-homocysteine hydrolase, NAD binding domain 65 214 3.6E-70
9 g12133.t17 ProSitePatterns PS00739 S-adenosyl-L-homocysteine hydrolase signature 2. 87 103 -
8 g12133.t17 SMART SM00996 AdoHcyase_2 1 293 3.5E-147
7 g12133.t17 SMART SM00997 AdoHcyase_NAD_2 65 214 4.2E-95
6 g12133.t17 SUPERFAMILY SSF52283 Formate/glycerate dehydrogenase catalytic domain-like 1 294 5.1E-62
5 g12133.t17 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 65 214 1.42E-66

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.

Raw TPM values