General information for g2144.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytochrome c-type heme lyase.
Parent gene
- The parent gene g2144 is located on chr_3: 15577745..15578714 (- 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 | g2144 | g2144.t4 | TTS | g2144.t4 | 15576828 | 15576828 |
| chr_3 | g2144 | g2144.t4 | isoform | g2144.t4 | 15576863 | 15577976 |
| chr_3 | g2144 | g2144.t4 | exon | g2144.t4.exon1 | 15576863 | 15577368 |
| chr_3 | g2144 | g2144.t4 | cds | g2144.t4.CDS1 | 15576863 | 15577368 |
| chr_3 | g2144 | g2144.t4 | exon | g2144.t4.exon2 | 15577440 | 15577768 |
| chr_3 | g2144 | g2144.t4 | cds | g2144.t4.CDS2 | 15577440 | 15577755 |
| chr_3 | g2144 | g2144.t4 | exon | g2144.t4.exon3 | 15577868 | 15577976 |
| chr_3 | g2144 | g2144.t4 | TSS | g2144.t4 | NA | NA |
Sequences
>g2144.t4 Gene=g2144 Length=944
TGAGCAAAAATTCTTAGAATCGTAAGGAAAATTTCAGAAACTTTTTGAAATCGAAATTTA
AAAAAAAACCTTATTTTATTAAAGAAATTCAAGTCATAAAAAAGCTAATATCACACATAA
AAATGGGTCAACAAATGTCGATCGCTGTTGCTGCTGAGTCTGTTGTTTCATCACTCGACC
ACTCAAAAATACCAGAAAATCATCCAAAGATTGAAGCTTCACATAAAATTCAAGAAATCC
CACCGGAATGTCCAATGCATCAAAAAAGCAAACCAGAGTCTAAAAAGCAAGAAGCAGTTT
TAGTTTCAGAATGTCCTATTCAAGGTGATATTAATCCACTTAATATGATGCCTCCTGCAA
ATCAACAACCTTCACCCGGTCAACCTTTTCCGCTTCCTACAGAACGTCAATTGTCCTCAA
TCCCTCGCGCTGTACCAAGTCCTGATGGTAAAACTTTTTGGGAATATCCTAGTCAACAAA
TGTTCTGGAATGCAATGCTTCGTAAAGGCTGGCGATGGAATGACGAAGATATTCAAGCAA
AAGATATGGACGATATTATAAAAATTCATAATGCTAATAATGAACAAGCATGGCAAGAAG
TCTTAAAATGGGAGGCTCTTCATGCACGTGAATGCGGCAATCCAAAATTGAAAAGTTTTG
GTGGAAAAGCAAAAGATTTTTCACCTCGAGCAAGAATTCGTCAAATGATGGGCTATGAAT
TACCTTTTGATCGTCATGATTGGATTGTTGATAGATGTGGAAAAGAAGTCCGTTACGTAA
TCGATTATTATGATGGAGGAATGGTTGATGAAAAATACAAATTCGCAATTCTCGATGTTC
GACCTGCTATGGACAGCTTTGAAAATATCTGGGATAGAATGAAAGTCGCATATATGCGAT
GGAAATACGAGTATTTTGACACTGAAACTGATAACAAGAACTAA
>g2144.t4 Gene=g2144 Length=273
MGQQMSIAVAAESVVSSLDHSKIPENHPKIEASHKIQEIPPECPMHQKSKPESKKQEAVL
VSECPIQGDINPLNMMPPANQQPSPGQPFPLPTERQLSSIPRAVPSPDGKTFWEYPSQQM
FWNAMLRKGWRWNDEDIQAKDMDDIIKIHNANNEQAWQEVLKWEALHARECGNPKLKSFG
GKAKDFSPRARIRQMMGYELPFDRHDWIVDRCGKEVRYVIDYYDGGMVDEKYKFAILDVR
PAMDSFENIWDRMKVAYMRWKYEYFDTETDNKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g2144.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 25 | - |
| 2 | g2144.t4 | PANTHER | PTHR12743:SF0 | CYTOCHROME C-TYPE HEME LYASE | 33 | 261 | 3.2E-90 |
| 3 | g2144.t4 | PANTHER | PTHR12743 | CYTOCHROME C1 HEME LYASE | 33 | 261 | 3.2E-90 |
| 1 | g2144.t4 | Pfam | PF01265 | Cytochrome c/c1 heme lyase | 28 | 254 | 1.2E-68 |
| 5 | g2144.t4 | ProSitePatterns | PS00821 | Cytochrome c and c1 heme lyases signature 1. | 149 | 164 | - |
| 4 | g2144.t4 | ProSitePatterns | PS00822 | Cytochrome c and c1 heme lyases signature 2. | 201 | 207 | - |
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:0005739 | mitochondrion | CC |
| GO:0004408 | holocytochrome-c synthase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01764 (cytochrome c heme-lyase)
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.
