General information for g1847.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Alpha-ketoglutarate-dependent dioxygenase alkB homolog 4.
Parent gene
- The parent gene g1847 is located on chr_3: 13284312..13285334 (+ 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_3 | g1847 | g1847.t1 | TSS | g1847.t1 | 13283252 | 13283252 |
| chr_3 | g1847 | g1847.t1 | isoform | g1847.t1 | 13283324 | 13284312 |
| chr_3 | g1847 | g1847.t1 | exon | g1847.t1.exon1 | 13283324 | 13283428 |
| chr_3 | g1847 | g1847.t1 | cds | g1847.t1.CDS1 | 13283324 | 13283428 |
| chr_3 | g1847 | g1847.t1 | exon | g1847.t1.exon2 | 13283495 | 13283919 |
| chr_3 | g1847 | g1847.t1 | cds | g1847.t1.CDS2 | 13283495 | 13283919 |
| chr_3 | g1847 | g1847.t1 | exon | g1847.t1.exon3 | 13283988 | 13284312 |
| chr_3 | g1847 | g1847.t1 | cds | g1847.t1.CDS3 | 13283988 | 13284312 |
| chr_3 | g1847 | g1847.t1 | TTS | g1847.t1 | 13284392 | 13284392 |
Sequences
>g1847.t1 Gene=g1847 Length=855
ATGCAAGATGACAAAAAAGTATGTGATTGTAAAGGAAAACGGACGTGCTTATTGTGTGAA
GGATTGTTTAATAAAAAAGCAAAAGATTGGCTAACAGAATACAAAGGTCTCGATTCATAT
GTCTACTGCCCTTCTTGTAAACAAATTTTTAAAGGGTGGCAAGCAGTTTTAAATTGTGAT
GAGCATGAGTTAAGTAGCAACGGAAGAAAATTTTCCGGTCTTTATCTTCAACAAGATTTT
TTGACAAATTCAGAATGCTCTAAAATAGTGCATAATGTTGATGAATCTTTGTGGGATCTA
TCACAGAGTGGTAGAAGAAAGAAAAACTTTGGACCAAAGGTCAATTTTAAAAAGAAAAAA
CTTCGTCCTGAATTTTTTCAAGGATTTTTTAGTAGTTCAGATTTCATTCGTGAAAAATTG
AATAAAGTTGATTTTCTCAAGGATTTTAAAATTGTCGAAGAATGTTTCTTAGAATATGAA
GAAAGTAGAGGTTCTCATATTGAGCCTCATTTGGATGATTGCTGGATTTGGGGTGAAAGA
ATAGTGACAGTTAATTGCATTGGTGATACTGTATTAACATTAACAAAACACTTTCCAACG
TATGCACAGCAATATAATCTTGACTGCCTAGAACTATATAAGAGTGAATTAATTGGAGAA
CTTGAAGATATAGTTCCTGATAATATTGTTATCAGAGTAAAAATGCCAGCACGTTCGTTG
TTTGTTCTTTATGGAGCTCCCCGTTATCAATATGAACATTCAGTTTTAAGAGAAGACATT
ACTAATAGACGCGTATGCATAGCTTACAGAGAATTTACAAAACAATATACTGATTTTAAT
AAACTTTTTGATTAA
>g1847.t1 Gene=g1847 Length=284
MQDDKKVCDCKGKRTCLLCEGLFNKKAKDWLTEYKGLDSYVYCPSCKQIFKGWQAVLNCD
EHELSSNGRKFSGLYLQQDFLTNSECSKIVHNVDESLWDLSQSGRRKKNFGPKVNFKKKK
LRPEFFQGFFSSSDFIREKLNKVDFLKDFKIVEECFLEYEESRGSHIEPHLDDCWIWGER
IVTVNCIGDTVLTLTKHFPTYAQQYNLDCLELYKSELIGELEDIVPDNIVIRVKMPARSL
FVLYGAPRYQYEHSVLREDITNRRVCIAYREFTKQYTDFNKLFD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g1847.t1 | Gene3D | G3DSA:2.60.120.590 | - | 62 | 279 | 0.0e+00 |
| 2 | g1847.t1 | PANTHER | PTHR12463 | OXYGENASE-RELATED | 3 | 278 | 0.0e+00 |
| 1 | g1847.t1 | Pfam | PF03171 | 2OG-Fe(II) oxygenase superfamily | 155 | 273 | 1.3e-06 |
| 3 | g1847.t1 | SUPERFAMILY | SSF51197 | Clavaminate synthase-like | 71 | 273 | 0.0e+00 |
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:0055114 | NA | NA |
| GO:0070988 | demethylation | BP |
| GO:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K10766 (DNA N6-methyl adenine demethylase)
Pathway
This gene does not belong to any 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.
