General information for g6838.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytochrome b5 reductase 4.
Parent gene
- The parent gene g6838 is located on chr_2: 19014715..19016240 (- 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 | g6838 | g6838.t1 | TTS | g6838.t1 | 19013110 | 19013110 |
| chr_2 | g6838 | g6838.t1 | isoform | g6838.t1 | 19013381 | 19014715 |
| chr_2 | g6838 | g6838.t1 | exon | g6838.t1.exon1 | 19013381 | 19014715 |
| chr_2 | g6838 | g6838.t1 | cds | g6838.t1.CDS1 | 19013381 | 19014715 |
| chr_2 | g6838 | g6838.t1 | TSS | g6838.t1 | 19014814 | 19014814 |
Sequences
>g6838.t1 Gene=g6838 Length=1335
ATGGCAACAGGAAATCCACGAAATAAAGTTGCATTAAAACAAGGTTTTTCACTTGTCGGT
TGGATTAGATTAGTTAATTCAGGAGAAGATCTCACCGGAACTAATGGAAAAAGATTTTCC
GTCTCACTTCAAGAATTATCAAAGCATAATAAGCAAAATGATTGTTGGATGGCTATTCGA
GGAAAAGTTTATAATGTAACAAGATATCTTAATTATCATCCTGGGGGTGTAGAGCAGTTA
ATGAGGGGTGCAGGTATAGATGCAACAAATCTTTTTGATGAATATCATTCTTGGGTCAAT
ATTGATCAATTGCTTGCAAAATGTTACATCGGTCCATTAAAAAATAATTTTATCAACTTT
AATCTTACCAATATTGATGAAAAGAGTAGTTCGAGGTCTCTTCTCCTGCCACCGTCAATT
GAAAGTGTAGCAATAAAAAAGATTTCAACTGCAGTTCCTCGGTTTGATTGGATTCAAAAA
CAAAATAATTTAAGCATATATTTTTATACCAAGAGCTTTAGCAATCCAGGAATTTTTATA
AAACAATTATGTGACAGTGATAAAGAATATGAAATAACAATATTTCTTGAGCAATCATCT
CATTTATACAAATTCTTATTTTTCAAGGCTTTGATGTGGCCACCAAGTATTAAAATTAAT
CAAGAAACTGGAAAAATTGAAATTTCATTTGAGAAAGTAGAGAAAGAACTCTGGAGTAGT
TATGGAACACATGAAAAATTATGCGAATCTAAGGATTTGAAAGATATTGAGTGTACAATT
GTTGAAAAGCAATTTATCAATCATGACACCATCAAGCTCATTTTGCGGCCTAAAAAGAAT
ATAATCATCAAAACCTCAATTGGTTACCATCTTAACTTTAGAGAAAACTTATTAGGAATG
GAAGTTATTCGAAGTTATACACCCGTTTTACCAAAATATCTAAATGAAACTCCGACATTT
GACATAAACTTTTTAATCAAAAAGTATGATTCTGGATTGCTATCTAAATATATTTCAGAG
AAGAATATTGGTGATACACTCTATATTTCTCATCAAAAAGGTTCATTAAATTTAACAAAT
TTAAAAAGTCATACAAACATTGGCATATTTGCTGCTGGTTCAGGCATCACACCTTTCTCT
TCTGGGCTAATTGATCATTTGCTCGAAAGAAGTACAAATCGAATTTCAAATCTGTTCCTC
TATTATTTTAATAAAAAAGAGGAGGATATCTGGTGTAAAAATATTTTTGATGAAATGACG
TGTAAAGATGATAGATTTAAAGTGAAATATATTTTATCAGAGGCAAATGAGAGCTGGACT
GGAGAAAGAGGATGA
>g6838.t1 Gene=g6838 Length=444
MATGNPRNKVALKQGFSLVGWIRLVNSGEDLTGTNGKRFSVSLQELSKHNKQNDCWMAIR
GKVYNVTRYLNYHPGGVEQLMRGAGIDATNLFDEYHSWVNIDQLLAKCYIGPLKNNFINF
NLTNIDEKSSSRSLLLPPSIESVAIKKISTAVPRFDWIQKQNNLSIYFYTKSFSNPGIFI
KQLCDSDKEYEITIFLEQSSHLYKFLFFKALMWPPSIKINQETGKIEISFEKVEKELWSS
YGTHEKLCESKDLKDIECTIVEKQFINHDTIKLILRPKKNIIIKTSIGYHLNFRENLLGM
EVIRSYTPVLPKYLNETPTFDINFLIKKYDSGLLSKYISEKNIGDTLYISHQKGSLNLTN
LKSHTNIGIFAAGSGITPFSSGLIDHLLERSTNRISNLFLYYFNKKEEDIWCKNIFDEMT
CKDDRFKVKYILSEANESWTGERG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g6838.t1 | CDD | cd06183 | cyt_b5_reduct_like | 258 | 444 | 2.72038E-42 |
| 11 | g6838.t1 | Gene3D | G3DSA:3.10.120.10 | Flavocytochrome B2 | 35 | 119 | 1.2E-30 |
| 10 | g6838.t1 | Gene3D | G3DSA:2.40.30.10 | Translation factors | 218 | 348 | 1.3E-15 |
| 9 | g6838.t1 | Gene3D | G3DSA:3.40.50.80 | - | 349 | 444 | 5.3E-15 |
| 4 | g6838.t1 | PANTHER | PTHR46237 | CYTOCHROME B5 REDUCTASE 4 FAMILY MEMBER | 4 | 436 | 4.3E-80 |
| 3 | g6838.t1 | Pfam | PF00173 | Cytochrome b5-like Heme/Steroid binding domain | 42 | 113 | 2.5E-23 |
| 1 | g6838.t1 | Pfam | PF00970 | Oxidoreductase FAD-binding domain | 258 | 355 | 1.8E-10 |
| 2 | g6838.t1 | Pfam | PF00175 | Oxidoreductase NAD-binding domain | 371 | 444 | 2.1E-7 |
| 13 | g6838.t1 | ProSitePatterns | PS00191 | Cytochrome b5 family, heme-binding domain signature. | 69 | 76 | - |
| 16 | g6838.t1 | ProSiteProfiles | PS50255 | Cytochrome b5 family, heme-binding domain profile. | 38 | 114 | 22.502 |
| 15 | g6838.t1 | ProSiteProfiles | PS51384 | Ferredoxin reductase-type FAD binding domain profile. | 253 | 359 | 9.126 |
| 14 | g6838.t1 | SMART | SM01117 | Cyt_b5_2 | 41 | 114 | 2.3E-28 |
| 6 | g6838.t1 | SUPERFAMILY | SSF55856 | Cytochrome b5-like heme/steroid binding domain | 41 | 120 | 5.5E-28 |
| 7 | g6838.t1 | SUPERFAMILY | SSF49764 | HSP20-like chaperones | 152 | 240 | 1.41E-5 |
| 5 | g6838.t1 | SUPERFAMILY | SSF63380 | Riboflavin synthase domain-like | 252 | 356 | 3.4E-14 |
| 8 | g6838.t1 | SUPERFAMILY | SSF52343 | Ferredoxin reductase-like, C-terminal NADP-linked domain | 345 | 444 | 1.96E-13 |
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:0020037 | heme binding | MF |
| GO:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00326 (cytochrome-b5 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.
