General information for g5631.t8
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.t8 | TSS | g5631.t8 | 10732477 | 10732477 |
| chr_2 | g5631 | g5631.t8 | isoform | g5631.t8 | 10733356 | 10736106 |
| chr_2 | g5631 | g5631.t8 | exon | g5631.t8.exon1 | 10733356 | 10734773 |
| chr_2 | g5631 | g5631.t8 | cds | g5631.t8.CDS1 | 10733436 | 10734773 |
| chr_2 | g5631 | g5631.t8 | exon | g5631.t8.exon2 | 10734940 | 10735443 |
| chr_2 | g5631 | g5631.t8 | cds | g5631.t8.CDS2 | 10734940 | 10735443 |
| chr_2 | g5631 | g5631.t8 | exon | g5631.t8.exon3 | 10735517 | 10736106 |
| chr_2 | g5631 | g5631.t8 | cds | g5631.t8.CDS3 | 10735517 | 10735708 |
| chr_2 | g5631 | g5631.t8 | TTS | g5631.t8 | 10736088 | 10736088 |
Sequences
>g5631.t8 Gene=g5631 Length=2512
CAAATCAAGACATTGAACGTGGTGTTTCTTATTTGCGCTTGAGACCTGATCGAGTCGCTT
GTCAAGATGCCACCGCCCAAATGGCTATGATGCAATTCATTTCCTCCGGATTGAAACGTG
TCGCTGTTCCAACAACAATTCATTGCGATCATTTGATTGAAGCACAAATTGGAGGCGATC
AAGATTTAGCTCGCGCAAAGAAACTCAATGAAGAAGTTTATCGTTTCTTAGAGACTGCAA
GTGCCAAGTATGGAGTTGGTTTCTGGAAGCCTGGTTCAGGTATTATTCATCAAATCATTC
TTGAGAATTACGCATTCCCTGGTCTTTTGATGATCGGTACTGACTCTCATACACCAAATG
GAGGCGGACTTGGTGGCCTTTGCATTGGTGTCGGTGGCGCTGATGCTGTTGATGTTATGG
CTAATATTCCGTGGGAATTGAAATGTCCAAAAGTTATTGGTGTTCATTTAACGGGAAAAA
TTGGTGGTTGGACTTCACCAAAGGATGTTATCTTGAAGGTTGCTGATATTTTGACTGTAA
AGGGAGGCACTGGTGCAATTGTTGAATATCATGGTAAAGGTGTTGATTCAATTTCATGCA
CAGGTATGGCAACAATCTGTAATATGGGTGCTGAAATTGGTGCAACCACTTCAACTTTCC
CATTCAATTCAAGAATGGCTGCTTATTTGAAATCAACTCTTCGTGATGGCATTGCTGCCG
AAGCTGCCAAATTCCAAACTCAATTGCTCCAAGCAGATGAAGGTGCACAATATGACGAGC
TCATTGAAATTAATTTGGATACATTGGAACCACATGTAAATGGTCCATTCACTCCAGATC
TTGCTCATCCAATTAGCAAACTTGGTGAAAATTCAAAAAAGAACGGTTATCCAATTGATA
TTAAAGTTGGTTTAATTGGTTCATGTACAAACTCATCATATGAAGATATGGGTCGATGTG
CTTCTATTGTCAAAGATGCTTTGTCTCATGGTCTTAAATCAAAAATTCCATTCAATGTTA
CACCCGGCTCTGAGCAAGTTCGTGCTACAATTGAACGTGATGGAATTGCGAAAACTCTTC
GTGATTTTGGTGGTACTGTCTTAGCTAATGCTTGTGGACCATGTATTGGTCAATGGGATC
GTCAAGATGTAAAGAAGGGTGACAAAAACACAATTGTAACTTCATACAACCGTAACTTTA
CCGGACGTAATGATGCTAATCCAGCAACTCATTGCTTCGTTACTTCACCTGAAATGGTTA
CAGCTTTGTCAATTGCTGGCCGCTTAGATTTCAATCCATTGAAAGACGAATTGACTGGTG
CTGATGGTAAGAAATTCAAATTGAAGGAACCATTCGGTGATGAATTGCCAGTTCGTGGCT
TTGATCCTGGCCAAGATACTTATCAACATCCACCAGCTGACGGTAGCAACGTAAAAGTCG
ATGTTGATCCAAAATCACAACGCTTACAATTACTTGAACCATTTGATAAATGGGATGGCA
AAGATTTAACAGAAATGACAGTTTTGATTAAAGTTAAAGGCAAGTGCACAACCGATCACA
TCTCAGCTGCTGGACCTTGGTTGAAATATCGTGGACATTTGGATAATATCTCAAATAACA
TGTTTATTGGTGCCACTAATGCTGAAAACAATGAAATGAATAAGATTAAAAATCAGGTTA
CTGGTGAATGGGGCGGAGTTCCAGACGTTGCTCGTTTCTATAAATCAAAGGGCATCCGTT
GGGTTGCTGTTGGTGATGAAAATTACGGAGAGGGTTCATCTCGCGAGCATGCTGCTCTTG
AACCACGTCATTTGGGAGGTCGCGCTATTATTGTTAAATCTTTTGCTCGTATTCACGAAA
CAAACTTGAAGAAGCAAGGCATGTTGCCAGTAACTTTCGCTAATCCAGCTGACTACGATA
AGATTCAACCAACTGATAAGATTTCAATTCTCGGTTTGAAAGATTTTGCACCAGGCAAAC
AATTGACAGCTGAAATTAAACACGCTGATGGTAAGACCGAGCAAATTAAATTGAACCACA
GTTTCAACGATCTTCAGATTTCATGGTTCAAGGCTGGTAGTGCATTAAATCGTATGAAGG
AAACAGCACACTAAATTAGTCATTTTCTTCTCGTCAAAATTTTTATCTTTACGCCTTCCA
TAATTTTTGGAAGTGATTTTTTTTATTATGAATCGCAACGATTAAGATAGATATATAATG
TCTCTAATTATTTAGACTCGATACCAAAAAAAATTCTTTATCTCCACAATTAAAACCACT
AAAACAAAACATCATAATCTTGATAGTGCAAATTTATGAGTATCTTCTCATTTTGTAGAA
ATCAAAAATATTTTATTTCGTCACATAAAAGTGTATGTGTCTTTTTTTGTCTTGTATTTC
AAAAATTGTGCTGTTTCGATGGGGGAAAATTGTTTGCAGTATAGTTTGTGAAATATAAAA
TTATATTGAAAGTTTAATAAATTGTAAATTCATTAAAAATGGATTGTTTTCT
>g5631.t8 Gene=g5631 Length=677
MAMMQFISSGLKRVAVPTTIHCDHLIEAQIGGDQDLARAKKLNEEVYRFLETASAKYGVG
FWKPGSGIIHQIILENYAFPGLLMIGTDSHTPNGGGLGGLCIGVGGADAVDVMANIPWEL
KCPKVIGVHLTGKIGGWTSPKDVILKVADILTVKGGTGAIVEYHGKGVDSISCTGMATIC
NMGAEIGATTSTFPFNSRMAAYLKSTLRDGIAAEAAKFQTQLLQADEGAQYDELIEINLD
TLEPHVNGPFTPDLAHPISKLGENSKKNGYPIDIKVGLIGSCTNSSYEDMGRCASIVKDA
LSHGLKSKIPFNVTPGSEQVRATIERDGIAKTLRDFGGTVLANACGPCIGQWDRQDVKKG
DKNTIVTSYNRNFTGRNDANPATHCFVTSPEMVTALSIAGRLDFNPLKDELTGADGKKFK
LKEPFGDELPVRGFDPGQDTYQHPPADGSNVKVDVDPKSQRLQLLEPFDKWDGKDLTEMT
VLIKVKGKCTTDHISAAGPWLKYRGHLDNISNNMFIGATNAENNEMNKIKNQVTGEWGGV
PDVARFYKSKGIRWVAVGDENYGEGSSREHAALEPRHLGGRAIIVKSFARIHETNLKKQG
MLPVTFANPADYDKIQPTDKISILGLKDFAPGKQLTAEIKHADGKTEQIKLNHSFNDLQI
SWFKAGSALNRMKETAH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g5631.t8 | CDD | cd01584 | AcnA_Mitochondrial | 1 | 402 | 0.0 |
| 19 | g5631.t8 | CDD | cd01578 | AcnA_Mitochon_Swivel | 484 | 632 | 9.90912E-109 |
| 16 | g5631.t8 | Gene3D | G3DSA:3.30.499.10 | Aconitase | 1 | 124 | 6.3E-59 |
| 17 | g5631.t8 | Gene3D | G3DSA:3.40.1060.10 | Aconitase | 125 | 242 | 5.0E-39 |
| 15 | g5631.t8 | Gene3D | G3DSA:3.30.499.10 | Aconitase | 243 | 414 | 2.2E-64 |
| 18 | g5631.t8 | Gene3D | G3DSA:3.20.19.10 | Aconitase | 458 | 677 | 5.3E-105 |
| 3 | g5631.t8 | PANTHER | PTHR43160 | ACONITATE HYDRATASE B | 1 | 675 | 0.0 |
| 4 | g5631.t8 | PANTHER | PTHR43160:SF3 | ACONITATE HYDRATASE, MITOCHONDRIAL | 1 | 675 | 0.0 |
| 7 | g5631.t8 | PRINTS | PR00415 | Aconitase family signature | 59 | 67 | 7.6E-38 |
| 12 | g5631.t8 | PRINTS | PR00415 | Aconitase family signature | 79 | 92 | 7.6E-38 |
| 9 | g5631.t8 | PRINTS | PR00415 | Aconitase family signature | 93 | 108 | 7.6E-38 |
| 6 | g5631.t8 | PRINTS | PR00415 | Aconitase family signature | 155 | 168 | 7.6E-38 |
| 11 | g5631.t8 | PRINTS | PR00415 | Aconitase family signature | 169 | 182 | 7.6E-38 |
| 8 | g5631.t8 | PRINTS | PR00415 | Aconitase family signature | 244 | 258 | 7.6E-38 |
| 10 | g5631.t8 | PRINTS | PR00415 | Aconitase family signature | 278 | 289 | 7.6E-38 |
| 5 | g5631.t8 | PRINTS | PR00415 | Aconitase family signature | 337 | 350 | 7.6E-38 |
| 2 | g5631.t8 | Pfam | PF00330 | Aconitase family (aconitate hydratase) | 14 | 400 | 4.5E-143 |
| 1 | g5631.t8 | Pfam | PF00694 | Aconitase C-terminal domain | 479 | 608 | 1.6E-43 |
| 21 | g5631.t8 | ProSitePatterns | PS00450 | Aconitase family signature 1. | 274 | 290 | - |
| 22 | g5631.t8 | ProSitePatterns | PS01244 | Aconitase family signature 2. | 337 | 350 | - |
| 14 | g5631.t8 | SUPERFAMILY | SSF53732 | Aconitase iron-sulfur domain | 1 | 448 | 9.29E-151 |
| 13 | g5631.t8 | SUPERFAMILY | SSF52016 | LeuD/IlvD-like | 454 | 674 | 1.14E-65 |
| 23 | g5631.t8 | TIGRFAM | TIGR01340 | aconitase_mito: aconitate hydratase, mitochondrial | 1 | 672 | 0.0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5631/g5631.t8; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5631.t8.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0006099 | tricarboxylic acid cycle | BP |
| GO:0003994 | aconitate hydratase activity | MF |
| GO:0051539 | 4 iron, 4 sulfur cluster binding | MF |
KEGG
Orthology
- This transcript has been annotated with K01681 (aconitate hydratase)
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.
