Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Bifunctional methylenetetrahydrofolate dehydrogenase/cyclohydrolase, mitochondrial.

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 g12344 g12344.t4 TSS g12344.t4 22650458 22650458
chr_1 g12344 g12344.t4 isoform g12344.t4 22650606 22652413
chr_1 g12344 g12344.t4 exon g12344.t4.exon1 22650606 22650640
chr_1 g12344 g12344.t4 exon g12344.t4.exon2 22651340 22651524
chr_1 g12344 g12344.t4 exon g12344.t4.exon3 22651603 22652413
chr_1 g12344 g12344.t4 cds g12344.t4.CDS1 22651846 22652268
chr_1 g12344 g12344.t4 TTS g12344.t4 22652547 22652547

Sequences

>g12344.t4 Gene=g12344 Length=1031
ATGGCACCAAATCCACATAGTGAAGTTCCATTACGTCCAGAGCCAATAGAAGCTAAAATA
ATTGATGGAAAGAAGATTTCTGAAGAAATTAAGATTGAATTACGCGAACAGATTAAAGAA
TGGATGCAACAAGAAAATGTAAGAGCTCCTCAATTGACATGCATTTTGGTTGGCGAAGAT
TCAGCTTCACAAGTCTATGTGAAGAATAAAATGAAAGTAAGCCGCAAATGATGTCGGAAT
AAAGAGTGAAACAATAAATTTACCAAAAACAATAAGTGAAGATGAACTTATTCAAATAAT
TGAGAGACTCAATGATGACAATTCAGTTGATGGAATTTTAGTTCAACTTCCATTGCCTGA
TCATATTGATGATAAAAAGATTTGCAATATTGTGAGTTGTGAGAAAGATGTTGATGGATT
TAATAGTACTAATCTTGGACGTTTGAGTCAAGACTTGAATACTATGGTACCTTGTACACC
ACTCGGTGTTCAAGAGCTTTTAAAAAAATATGATATCGAAACATTCGGCAAAACTGCTGT
CGTTGTTGGAAGAAGTGCACATGTTGGAAAGCCAATTCAATCTCTATTGCAATCTGATGG
TCGTCATGAAATTTCAGGAATGGATTGCACAACTATAATGTGTCACAGATTCACACCTCC
AGAGAAACTTAAAAAATTTTGCAGAGAAGCTGATATTATCATTGTTGCCGTTGGAAAACC
AAATTTAATTCGTGAAGATATGATTAAGCCAGGTGCTTGTGTTATTGATGTCGGTATTAC
AAGAATCTATGATGAAGAGACTAAAAAATCAAAGCTTGTTGGTGATGTTGATTTTGAAAA
TGTAAAGAAAGTTGCTGGTTTAATTACACCTGTTCCAGGTTTGTAACTTTATCATTTGAT
TAATGCACATTTCTAATTTGTCAAATTTTTTAGGTGGAGTTGGTCCAATGACAGTTTGCA
TGCTGATGAAGAACACATTTACAGCAGCAAAGAGACTTGCAAAATTACGCAAAGAGAAGC
TAATTAAATAA

>g12344.t4 Gene=g12344 Length=140
MVPCTPLGVQELLKKYDIETFGKTAVVVGRSAHVGKPIQSLLQSDGRHEISGMDCTTIMC
HRFTPPEKLKKFCREADIIIVAVGKPNLIREDMIKPGACVIDVGITRIYDEETKKSKLVG
DVDFENVKKVAGLITPVPGL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g12344.t4 CDD cd01080 NAD_bind_m-THF_DH_Cyclohyd 2 139 0
9 g12344.t4 Gene3D G3DSA:3.40.50.720 - 1 139 0
2 g12344.t4 PANTHER PTHR48099:SF11 BIFUNCTIONAL METHYLENETETRAHYDROFOLATE DEHYDROGENASE/CYCLOHYDROLASE, MITOCHONDRIAL 1 139 0
3 g12344.t4 PANTHER PTHR48099 C-1-TETRAHYDROFOLATE SYNTHASE, CYTOPLASMIC-RELATED 1 139 0
6 g12344.t4 PRINTS PR00085 Tetrahydrofolate dehydrogenase/cyclohydrolase family signature 18 38 0
5 g12344.t4 PRINTS PR00085 Tetrahydrofolate dehydrogenase/cyclohydrolase family signature 77 106 0
7 g12344.t4 PRINTS PR00085 Tetrahydrofolate dehydrogenase/cyclohydrolase family signature 117 133 0
4 g12344.t4 PRINTS PR00085 Tetrahydrofolate dehydrogenase/cyclohydrolase family signature 134 140 0
1 g12344.t4 Pfam PF02882 Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain 1 139 0
8 g12344.t4 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 2 139 0

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:0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity MF
GO:0055114 NA NA

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