General information for g5631.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable aconitate hydratase, mitochondrial.
Parent gene
- The parent gene g5631 is located on chr_2: 10734995..10744435 (+ 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 | g5631 | g5631.t10 | isoform | g5631.t10 | 10734995 | 10735708 |
| chr_2 | g5631 | g5631.t10 | exon | g5631.t10.exon1 | 10734995 | 10735443 |
| chr_2 | g5631 | g5631.t10 | cds | g5631.t10.CDS1 | 10735036 | 10735443 |
| chr_2 | g5631 | g5631.t10 | exon | g5631.t10.exon2 | 10735517 | 10735708 |
| chr_2 | g5631 | g5631.t10 | cds | g5631.t10.CDS2 | 10735517 | 10735708 |
| chr_2 | g5631 | g5631.t10 | TTS | g5631.t10 | 10736088 | 10736088 |
| chr_2 | g5631 | g5631.t10 | TSS | g5631.t10 | NA | NA |
Sequences
>g5631.t10 Gene=g5631 Length=641
TTGAACCATTTGATAAATGGGATGGCAAAGATTTAACAGAAATGACAGTTTTGATTAAAG
TTAAAGGCAAGTGCACAACCGATCACATCTCAGCTGCTGGACCTTGGTTGAAATATCGTG
GACATTTGGATAATATCTCAAATAACATGTTTATTGGTGCCACTAATGCTGAAAACAATG
AAATGAATAAGATTAAAAATCAGGTTACTGGTGAATGGGGCGGAGTTCCAGACGTTGCTC
GTTTCTATAAATCAAAGGGCATCCGTTGGGTTGCTGTTGGTGATGAAAATTACGGAGAGG
GTTCATCTCGCGAGCATGCTGCTCTTGAACCACGTCATTTGGGAGGTCGCGCTATTATTG
TTAAATCTTTTGCTCGTATTCACGAAACAAACTTGAAGAAGCAAGGCATGTTGCCAGTAA
CTTTCGCTAATCCAGCTGACTACGATAAGATTCAACCAACTGATAAGATTTCAATTCTCG
GTTTGAAAGATTTTGCACCAGGCAAACAATTGACAGCTGAAATTAAACACGCTGATGGTA
AGACCGAGCAAATTAAATTGAACCACAGTTTCAACGATCTTCAGATTTCATGGTTCAAGG
CTGGTAGTGCATTAAATCGTATGAAGGAAACAGCACACTAA
>g5631.t10 Gene=g5631 Length=199
MTVLIKVKGKCTTDHISAAGPWLKYRGHLDNISNNMFIGATNAENNEMNKIKNQVTGEWG
GVPDVARFYKSKGIRWVAVGDENYGEGSSREHAALEPRHLGGRAIIVKSFARIHETNLKK
QGMLPVTFANPADYDKIQPTDKISILGLKDFAPGKQLTAEIKHADGKTEQIKLNHSFNDL
QISWFKAGSALNRMKETAH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g5631.t10 | CDD | cd01578 | AcnA_Mitochon_Swivel | 6 | 154 | 0 |
| 5 | g5631.t10 | Gene3D | G3DSA:3.20.19.10 | Aconitase | 1 | 199 | 0 |
| 2 | g5631.t10 | PANTHER | PTHR43160:SF6 | ACONITATE HYDRATASE, MITOCHONDRIAL | 2 | 197 | 0 |
| 3 | g5631.t10 | PANTHER | PTHR43160 | ACONITATE HYDRATASE B | 2 | 197 | 0 |
| 1 | g5631.t10 | Pfam | PF00694 | Aconitase C-terminal domain | 1 | 130 | 0 |
| 4 | g5631.t10 | SUPERFAMILY | SSF52016 | LeuD/IlvD-like | 2 | 196 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5631/g5631.t10; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5631.t10.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
