General information for g4451.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative oxidoreductase GLYR1-like protein.
Parent gene
- The parent gene g4451 is located on chr_2: 2444865..2445921 (+ 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 | g4451 | g4451.t4 | TSS | g4451.t4 | 2442641 | 2442641 |
| chr_2 | g4451 | g4451.t4 | isoform | g4451.t4 | 2442769 | 2444660 |
| chr_2 | g4451 | g4451.t4 | exon | g4451.t4.exon1 | 2442769 | 2442809 |
| chr_2 | g4451 | g4451.t4 | cds | g4451.t4.CDS1 | 2442769 | 2442809 |
| chr_2 | g4451 | g4451.t4 | exon | g4451.t4.exon2 | 2443070 | 2443106 |
| chr_2 | g4451 | g4451.t4 | cds | g4451.t4.CDS2 | 2443070 | 2443106 |
| chr_2 | g4451 | g4451.t4 | exon | g4451.t4.exon3 | 2443166 | 2443248 |
| chr_2 | g4451 | g4451.t4 | cds | g4451.t4.CDS3 | 2443166 | 2443248 |
| chr_2 | g4451 | g4451.t4 | exon | g4451.t4.exon4 | 2443307 | 2443436 |
| chr_2 | g4451 | g4451.t4 | cds | g4451.t4.CDS4 | 2443307 | 2443436 |
| chr_2 | g4451 | g4451.t4 | exon | g4451.t4.exon5 | 2443498 | 2443695 |
| chr_2 | g4451 | g4451.t4 | cds | g4451.t4.CDS5 | 2443498 | 2443695 |
| chr_2 | g4451 | g4451.t4 | exon | g4451.t4.exon6 | 2443760 | 2444660 |
| chr_2 | g4451 | g4451.t4 | cds | g4451.t4.CDS6 | 2443760 | 2444659 |
| chr_2 | g4451 | g4451.t4 | TTS | g4451.t4 | NA | NA |
Sequences
>g4451.t4 Gene=g4451 Length=1390
ATGAATGATACAGTATCTTTACACATCGGTGATTTGGTCTGGGCCAAAATGAAAGGATAT
TGTGCTTGGCCAGGGAGAATCGTTGAAGCAAGTGATCATCTACAAAAATCTAGAAAAACC
GAAAAATCACAATGCGTTTATTTCTTCGGAACTCATAATTATGCTTGGATTGAAGACAAC
AATGTTTATCCATATCTCGATTATAAAGATCAAATGCTTAAACTTGGCAAGCCTAAAACG
ACATTTGATAGAGCAGTTAATGAAATTGAAGCATATATGAAAGATCCTACCGCATCTGAA
ACAATAATAACACCGGCAAGGAAAAAATCGCTACCCAAAGTAAGACAATCAATAACGTCA
GCAGATGAGAGCATTGTTAAAGAGGAAATTGCAGAAGATATAAACGATGTTGCAAGTGGA
GTTGAAGAAGATGAGATTGAAACGCCAAAGAAAGTTGTTGCAAAAGTTCCAGTCAAGAAG
AATTCGACAAAAAAGTCAAAAGTAATGAGTGCAAAGAAAAAAGCTGAAGTTGATAGCGGT
GACATAGAAATTCCACCACCAAAAAGAGCACGTGTATCAAGTTCAAATTTGCTTGCTCGT
AATCATTCTATCAATAATAACAATAATGATTCAATCAGCTCATCAGAAATGGTTTCACAA
AAAGAATATTCCTCACCAGTGCCTCGTTCACGTGTTGCTCGTGCAGTCATTGATCGTCCA
GAGATCATTTATACTAAACCAGAGTACTCTGAATTGGATGTAAAAACTATTACAGATACA
TTGAAATCAAAGAAAATAACTGCATCTACGAGTAAATTTGGTTTCATTGGTCTCGGCATT
ATGGGTAGTGGCATAGTCAAAAATCTTATCAACTCTGGACATGAAGTATATGTTTATAAT
CGAACTAAAGACAAAACACTAAAGTTTGAGGAAGCTGGTGCTACTGTTTTGATTACACCA
AGTGATGTAGTCGAAAATTCTGATATAACGTTCTCGTGTGTATCCGATCCACAAGCACTG
AGAGATACAATTTTTGGAACTTATGGCGTTAGCTCATTACAACCTGAATTAGCTCAAGGA
AAAGGATATGTTGAAATGACAACAATTGATGCTGACACATCGAGAGATATTGAAAGTGCA
TTGACATCGATAGGCATGCAATATTTGGAAGCACAAATTCATGGTACAAAAGAGCAAGCT
GAAGAGGGAAAGCTTATTATTTTAGCAGCAGGTAGCAAACAAATTTTCGACTCCTGTCAA
ACATGCTTTGAAGCTATGGGTAGAAATTCATTTTTTGTTGGTGAAACGGGAAATGCAACA
AAAATGAATTTAGTTTTACAAGCTATTTCGGGTGTAACTATTGCTGGACTTGCAGATTCT
CTAGCACTTG
>g4451.t4 Gene=g4451 Length=463
MNDTVSLHIGDLVWAKMKGYCAWPGRIVEASDHLQKSRKTEKSQCVYFFGTHNYAWIEDN
NVYPYLDYKDQMLKLGKPKTTFDRAVNEIEAYMKDPTASETIITPARKKSLPKVRQSITS
ADESIVKEEIAEDINDVASGVEEDEIETPKKVVAKVPVKKNSTKKSKVMSAKKKAEVDSG
DIEIPPPKRARVSSSNLLARNHSINNNNNDSISSSEMVSQKEYSSPVPRSRVARAVIDRP
EIIYTKPEYSELDVKTITDTLKSKKITASTSKFGFIGLGIMGSGIVKNLINSGHEVYVYN
RTKDKTLKFEEAGATVLITPSDVVENSDITFSCVSDPQALRDTIFGTYGVSSLQPELAQG
KGYVEMTTIDADTSRDIESALTSIGMQYLEAQIHGTKEQAEEGKLIILAAGSKQIFDSCQ
TCFEAMGRNSFFVGETGNATKMNLVLQAISGVTIAGLADSLAL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g4451.t4 | Coils | Coil | Coil | 463 | 463 | - |
| 9 | g4451.t4 | Gene3D | G3DSA:2.30.30.140 | - | 2 | 102 | 4.8E-26 |
| 8 | g4451.t4 | Gene3D | G3DSA:3.40.50.720 | - | 255 | 434 | 1.5E-45 |
| 3 | g4451.t4 | PANTHER | PTHR43580 | OXIDOREDUCTASE GLYR1-RELATED | 266 | 463 | 1.0E-69 |
| 4 | g4451.t4 | PANTHER | PTHR43580:SF2 | OXIDOREDUCTASE GLYR1-RELATED | 266 | 463 | 1.0E-69 |
| 1 | g4451.t4 | Pfam | PF00855 | PWWP domain | 8 | 93 | 5.4E-20 |
| 2 | g4451.t4 | Pfam | PF03446 | NAD binding domain of 6-phosphogluconate dehydrogenase | 272 | 434 | 1.9E-36 |
| 11 | g4451.t4 | ProSiteProfiles | PS50812 | PWWP domain profile. | 9 | 68 | 15.59 |
| 7 | g4451.t4 | SMART | SM00293 | PWWP_4 | 7 | 66 | 1.6E-16 |
| 5 | g4451.t4 | SUPERFAMILY | SSF63748 | Tudor/PWWP/MBT | 3 | 99 | 7.82E-25 |
| 6 | g4451.t4 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 272 | 435 | 1.9E-37 |
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:0050661 | NADP binding | 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.
