General information for g5979.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Sepiapterin reductase.
Parent gene
- The parent gene g5979 is located on chr_2: 13158794..13159690 (- 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_2 | g5979 | g5979.t1 | TTS | g5979.t1 | 13158330 | 13158330 |
| chr_2 | g5979 | g5979.t1 | isoform | g5979.t1 | 13158516 | 13159690 |
| chr_2 | g5979 | g5979.t1 | exon | g5979.t1.exon1 | 13158516 | 13158785 |
| chr_2 | g5979 | g5979.t1 | cds | g5979.t1.CDS1 | 13158516 | 13158785 |
| chr_2 | g5979 | g5979.t1 | exon | g5979.t1.exon2 | 13158917 | 13159690 |
| chr_2 | g5979 | g5979.t1 | cds | g5979.t1.CDS2 | 13158917 | 13159690 |
| chr_2 | g5979 | g5979.t1 | TSS | g5979.t1 | 13160236 | 13160236 |
Sequences
>g5979.t1 Gene=g5979 Length=1044
ATGGCAAAAAATCAAATTGATTTAAATAATAAATTAGTGTATCTGATAATCACTGGAGCA
AGCAGAGGCATAGGTAAAGAATTGGCCATTGAAACATCTAAAAATTTTAAAACTGGTTCT
ACTGTTGTTTTACTTGCTCGCTCAAAAGAGGGATTAGAAAACACAAAAAAAGTCATTAAC
GAAACAAATAAAAATGTTGAAGTCATTATTAAATCAATTGATTTAACAAAACCAAGTGTT
GAGGAATTAGATGAGATTATTAATAATTCATTTGATGCATCTAAAAATTATGACCTAACA
ATGATAATACATAATGTAGGCACACTTGGTGATATTTCAAAATGGTCCAATGATATGAAC
GATTATAACGAGTTGGAACAATATTTCAGCACTAATGTTTTTGCACCAGTAATTCTCAAC
AATCGCTTACTTAAAGTCATTCCAAAAAGTATGAAAACATTTATTGTGAATATCACATCG
AAAGCTGCTTTGCATGCATTTAAAAGCTTTGGATTTTACTGTATGGGAAAAGCTGCACGT
GAAATGTACTTTAAGATGATTGCTGAAGAATTCAAGGATCTTTTGGTTCTCAATTATTCA
CCAGGACCAGTTGAAAGTGATATGACTGTGTATGCACAAAACGCATCTATTTCAGAAGAG
ACATCTGGAATGTTTAAGCAACTACGAAATGAGGGAACAATCTTAACCACAGCAATGACT
ACTAAACGATTTTTAGAAGTTGTTGCTGCTGGAAAATATAATTCTGGAGATCATATGTTG
AAATCATCCAATTTTCATCAATCTTTTCTATTTTTAACGAAATTGGCTTATAAAAATCGA
ATTACAATACCGGTGTTTGTTTGTGTGGCATTTTTGGTTTGCAATTTTCGTTGGGAAATC
GAAATTAGCATACAAACTGAACGATTACAAGTTCAAGCGAATAATTCAGATCAAGAAGAT
ATTGATTTAACAGACGATGATTCAGATAATTCCGATGACGAATATGAGCCGGTCTCAACA
GATGATGAATTAACAGACATCTAA
>g5979.t1 Gene=g5979 Length=347
MAKNQIDLNNKLVYLIITGASRGIGKELAIETSKNFKTGSTVVLLARSKEGLENTKKVIN
ETNKNVEVIIKSIDLTKPSVEELDEIINNSFDASKNYDLTMIIHNVGTLGDISKWSNDMN
DYNELEQYFSTNVFAPVILNNRLLKVIPKSMKTFIVNITSKAALHAFKSFGFYCMGKAAR
EMYFKMIAEEFKDLLVLNYSPGPVESDMTVYAQNASISEETSGMFKQLRNEGTILTTAMT
TKRFLEVVAAGKYNSGDHMLKSSNFHQSFLFLTKLAYKNRITIPVFVCVAFLVCNFRWEI
EISIQTERLQVQANNSDQEDIDLTDDDSDNSDDEYEPVSTDDELTDI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g5979.t1 | Gene3D | G3DSA:3.40.50.720 | - | 13 | 261 | 6.5E-45 |
| 14 | g5979.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 315 | 347 | - |
| 13 | g5979.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 319 | 347 | - |
| 2 | g5979.t1 | PANTHER | PTHR44085 | SEPIAPTERIN REDUCTASE | 13 | 259 | 3.1E-64 |
| 5 | g5979.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 14 | 31 | 1.3E-9 |
| 4 | g5979.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 97 | 108 | 1.3E-9 |
| 7 | g5979.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 147 | 163 | 1.3E-9 |
| 6 | g5979.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 173 | 192 | 1.3E-9 |
| 3 | g5979.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 192 | 209 | 1.3E-9 |
| 1 | g5979.t1 | Pfam | PF00106 | short chain dehydrogenase | 16 | 211 | 8.5E-25 |
| 11 | g5979.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 280 | - |
| 12 | g5979.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 281 | 298 | - |
| 10 | g5979.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 299 | 347 | - |
| 8 | g5979.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 15 | 253 | 1.38E-34 |
| 15 | g5979.t1 | TIGRFAM | TIGR01500 | sepiapter_red: sepiapterin reductase | 13 | 259 | 9.8E-68 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5979/g5979.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5979.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0004757 | sepiapterin reductase activity | MF |
| GO:0055114 | NA | NA |
| GO:0006729 | tetrahydrobiopterin biosynthetic process | BP |
KEGG
Orthology
- This transcript has been annotated with K00072 (sepiapterin reductase)
Pathway
- This transcript belongs to the following pathways
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.
