General information for g8234.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytochrome c1, heme protein, mitochondrial.
Parent gene
- The parent gene g8234 is located on chr_2: 29210080..29210689 (+ 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 | g8234 | g8234.t1 | TSS | g8234.t1 | 29208745 | 29208745 |
| chr_2 | g8234 | g8234.t1 | isoform | g8234.t1 | 29208849 | 29210324 |
| chr_2 | g8234 | g8234.t1 | exon | g8234.t1.exon1 | 29208849 | 29208908 |
| chr_2 | g8234 | g8234.t1 | cds | g8234.t1.CDS1 | 29208849 | 29208908 |
| chr_2 | g8234 | g8234.t1 | exon | g8234.t1.exon2 | 29209275 | 29209325 |
| chr_2 | g8234 | g8234.t1 | cds | g8234.t1.CDS2 | 29209275 | 29209325 |
| chr_2 | g8234 | g8234.t1 | exon | g8234.t1.exon3 | 29209391 | 29209539 |
| chr_2 | g8234 | g8234.t1 | cds | g8234.t1.CDS3 | 29209391 | 29209539 |
| chr_2 | g8234 | g8234.t1 | exon | g8234.t1.exon4 | 29209600 | 29209988 |
| chr_2 | g8234 | g8234.t1 | cds | g8234.t1.CDS4 | 29209600 | 29209988 |
| chr_2 | g8234 | g8234.t1 | exon | g8234.t1.exon5 | 29210053 | 29210324 |
| chr_2 | g8234 | g8234.t1 | cds | g8234.t1.CDS5 | 29210053 | 29210324 |
| chr_2 | g8234 | g8234.t1 | TTS | g8234.t1 | 29210692 | 29210692 |
Sequences
>g8234.t1 Gene=g8234 Length=921
ATGGCTCTTCGACTAACTTCATCTCTTTTAAAATCTAGTAATGGACAAGCTTTACAACAG
CTAAACAAATTTTCAACGTCAACAAAAACATGGAGCCGTGGACAGAAAACCTTTGCCACA
ATCGCAGGACTTACTGTTGGAGGTGCTGGTGCACTTTTATATGCACTAGAATCAGCTGTT
AGTGCATCTAGTGATGCTGTTCATGCACCAAAACAAAACTGGAGTCATAAAGGTTTGATC
TCATCGTTAGATCATGCAAGTATTCGCCGTGGTTATGAAGTTTATAAGCAAGTTTGCGCA
GCATGCCATTCAATGCAATATATTGCTTATCGAAATCTTGTTGGTGTTTCACACACTGAA
GCTGAAGCAAAAGCTGAAGCGGAAGAAGCTCAAGTAAAGGACGGTCCAAATGAGCAAGGC
GAATATTTTATGAGACCTGGAAAACTTTCTGATTACTTCCCAAGCCCATATCCAAACGAA
GAAGCAGCTCGCGCTGCAAATAACGGTGCCTATCCACCAGATCTTAGCTGGATTGTGTCA
GCTCGTAAAGGAGGTGAAGATTATATCTTTGCATTGCTGACTGGATATTGTGACGCTCCT
GCTGGCATCAATTTAAGAGAAGGACAATATTATAATCCTTATTTCTCGGGTGGAGCAATT
GGTATGGCTCAGGCACTTTATAACGAAGCAATGGAATATAGTGATGGAACACCAGCTACT
GCAAGTCAATTGGCAAAGGATGTTTCAGTGTTTTTGAAATGGGCATCAGAGCCAGAGCAC
GATCAGCGTAAACGAATGCTTATCAAAGCCGTTGGCATCTTTTCACTTCTTATTGGACTC
ACCTATTACATTAAGCGTCTTAAGTGGTCATCTCTCAAATCGAGAAAAATTGCTTTTTAT
CCAAAAAATAAGCCAGAGTAG
>g8234.t1 Gene=g8234 Length=306
MALRLTSSLLKSSNGQALQQLNKFSTSTKTWSRGQKTFATIAGLTVGGAGALLYALESAV
SASSDAVHAPKQNWSHKGLISSLDHASIRRGYEVYKQVCAACHSMQYIAYRNLVGVSHTE
AEAKAEAEEAQVKDGPNEQGEYFMRPGKLSDYFPSPYPNEEAARAANNGAYPPDLSWIVS
ARKGGEDYIFALLTGYCDAPAGINLREGQYYNPYFSGGAIGMAQALYNEAMEYSDGTPAT
ASQLAKDVSVFLKWASEPEHDQRKRMLIKAVGIFSLLIGLTYYIKRLKWSSLKSRKIAFY
PKNKPE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g8234.t1 | Gene3D | G3DSA:1.10.760.10 | Cytochrome c | 63 | 258 | 4.3E-89 |
| 14 | g8234.t1 | Gene3D | G3DSA:1.20.5.100 | - | 259 | 303 | 4.6E-20 |
| 2 | g8234.t1 | PANTHER | PTHR10266:SF3 | CYTOCHROME C1, HEME PROTEIN, MITOCHONDRIAL | 16 | 302 | 1.1E-127 |
| 3 | g8234.t1 | PANTHER | PTHR10266 | CYTOCHROME C1 | 16 | 302 | 1.1E-127 |
| 10 | g8234.t1 | PRINTS | PR00603 | Cytochrome C1 signature | 72 | 91 | 7.9E-70 |
| 8 | g8234.t1 | PRINTS | PR00603 | Cytochrome C1 signature | 92 | 111 | 7.9E-70 |
| 5 | g8234.t1 | PRINTS | PR00603 | Cytochrome C1 signature | 137 | 157 | 7.9E-70 |
| 9 | g8234.t1 | PRINTS | PR00603 | Cytochrome C1 signature | 170 | 194 | 7.9E-70 |
| 11 | g8234.t1 | PRINTS | PR00603 | Cytochrome C1 signature | 208 | 219 | 7.9E-70 |
| 4 | g8234.t1 | PRINTS | PR00603 | Cytochrome C1 signature | 219 | 238 | 7.9E-70 |
| 6 | g8234.t1 | PRINTS | PR00603 | Cytochrome C1 signature | 239 | 258 | 7.9E-70 |
| 7 | g8234.t1 | PRINTS | PR00603 | Cytochrome C1 signature | 258 | 273 | 7.9E-70 |
| 1 | g8234.t1 | Pfam | PF02167 | Cytochrome C1 family | 74 | 291 | 2.0E-94 |
| 18 | g8234.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 36 | - |
| 21 | g8234.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 37 | 56 | - |
| 19 | g8234.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 57 | 265 | - |
| 20 | g8234.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 266 | 284 | - |
| 17 | g8234.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 285 | 306 | - |
| 16 | g8234.t1 | ProSiteProfiles | PS51007 | Cytochrome c family profile. | 86 | 256 | 7.636 |
| 12 | g8234.t1 | SUPERFAMILY | SSF46626 | Cytochrome c | 66 | 257 | 5.82E-72 |
| 13 | g8234.t1 | SUPERFAMILY | SSF81496 | Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor | 258 | 302 | 9.94E-16 |
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:0009055 | electron transfer activity | MF |
| GO:0020037 | heme binding | MF |
KEGG
Orthology
- This transcript has been annotated with K00413 (ubiquinol-cytochrome c reductase cytochrome c1 subunit)
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.
