General information for g11730.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alpha-aminoadipic semialdehyde synthase, mitochondrial.
Parent gene
- The parent gene g11730 is located on chr_1: 18106891..18109696 (+ 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_1 | g11730 | g11730.t3 | TSS | g11730.t3 | 18103398 | 18103398 |
| chr_1 | g11730 | g11730.t3 | isoform | g11730.t3 | 18103425 | 18106530 |
| chr_1 | g11730 | g11730.t3 | exon | g11730.t3.exon1 | 18103425 | 18103490 |
| chr_1 | g11730 | g11730.t3 | exon | g11730.t3.exon2 | 18103556 | 18103599 |
| chr_1 | g11730 | g11730.t3 | exon | g11730.t3.exon3 | 18103664 | 18103774 |
| chr_1 | g11730 | g11730.t3 | exon | g11730.t3.exon4 | 18104068 | 18104308 |
| chr_1 | g11730 | g11730.t3 | cds | g11730.t3.CDS1 | 18104215 | 18104308 |
| chr_1 | g11730 | g11730.t3 | exon | g11730.t3.exon5 | 18104366 | 18104590 |
| chr_1 | g11730 | g11730.t3 | cds | g11730.t3.CDS2 | 18104366 | 18104590 |
| chr_1 | g11730 | g11730.t3 | exon | g11730.t3.exon6 | 18104652 | 18104825 |
| chr_1 | g11730 | g11730.t3 | cds | g11730.t3.CDS3 | 18104652 | 18104825 |
| chr_1 | g11730 | g11730.t3 | exon | g11730.t3.exon7 | 18104897 | 18106530 |
| chr_1 | g11730 | g11730.t3 | cds | g11730.t3.CDS4 | 18104897 | 18106530 |
| chr_1 | g11730 | g11730.t3 | TTS | g11730.t3 | 18107225 | 18107225 |
Sequences
>g11730.t3 Gene=g11730 Length=2495
ATGTTGCGAATAAATAATCATCTAAAAATTGATAAAAAGATCAAAACTTTATTTCGTCAA
AAACATAATGGTACTGTTATAGCAATACGTCGAGAAGATCAGTCTGTATGGGAACGAAGA
GCTCCTTTTAATCCAGCAATGGTGAAAAGGCTAATAACAAAAGAAGGAGCAAAAGTTATA
GTACAGCCTTCTAATCGACGTGCCTATCCTATGCAGGTAAAGCTTATTTAAATGCTGGAG
CTGTGATTAATGAAGATATCAGCGAAGCATCTGTAATTTTTGGTGTAAAGCAAGTTCCTG
TAGATTCTTTGATTCCCGATAAAACTTATTGTTTCTTTTCACATACAATAAAAGCACAAG
AAACAAATATGCCTCTCCTTGATGCAGTAATTGAGAAAAATATTCGTCTTATAGATTATG
AGAAACTTATGGATCGTAATGGTTTGCGTTTAGTTGCATTTGGTAAATATGCTGGTGTTG
CAGGAATGGTTAATATATTGCATGGGCTTGGACTACGACTTTTGGCTTTAGGACATCATA
CGCCATTTATGCAAATTTCACCTGCACATAATTATCGAAACTCAATGATGGCACGTCAAG
CAGTTCGTGATTGCGGTTACGAAATTTCGCTTGGAATGATGCCTAAATCCATCGGACCAA
TCACATTTATTTTTACAGGAACTGGAAGTGTATCTCAGGGAGCTCAACAAATATTTCAAG
AGTTGCCTGTTGAGTACGTTCCGCCAGATATGTTAAGGAAAGTTGCTGAGCATGGCAGTC
AAAATAAATTGTATGGATGTGAAGTATCTAGAAGTGATCATTTAGAACGTCGAGAAGGAG
GTGGATTTGATCCTATTGGTAAATATGAACAGTTTCCTGAACGTTACATATCAACGTTTA
GTAAGAAAATCGCTCCATATGCTTCAGTTATTGTAAATGGGATATATTGGGCTGTTGGAT
CTCCGAAATTAATAACTATTCCTGATGCAAAAAATCTTTTACGACCTGCCAATACACCTT
GGCTTCCATCTTCTGTAGGGGCACCTTCATTGCCACATCGAATGCTTGCTATTTGTGATA
TATCAGCTGATCCAGGCGGTTCAATAGAGTTTATGAATGAATGTACTACTATTGATACAC
CCTTTTGTCTTTATGACGCAGACCGCAACAAAGATACAAAAAGTTTTAAAGGCCCTGGTG
TACTTGTGTGCTCTATTGATAATATGCCAACTCAATTACCAACAGAAGCTACCGATTATT
TTGGTGAATTACTTTATCCATATGCTCTTGATATACTGAAATCTGATGCTTCCAAGCCAC
TTGAAGAACATAATTTTTTGCCAGAAGTTGAAGGTGCAATAATAGCTAGTAATGGAAAGT
TAACACCTAATTTTGAATACATTAATGAGCTACGAGAAGCAAATGTGAGAAAGAACAAAA
TCGATGGAGCTACCTTCAGTAAAAGAGTTTTAGTTCTTGGGGCTGGCATGGTTTCAGCAC
CGCTTGTAGAATATCTTAGCCGTGATAATGAATTAAGCATGAAAGTATGTTCACAAGTTA
AAGAAGAAGCAGACCGACTAGCTTTTCGTTATAATAATGTCGAATCTTTCTACATGGATG
TTCGTAATAATCAAGAACATTTGGCAAAATTATGCGAAGAAGCCGATTGTGTTGTATCAC
TTTTACCTTATGCTTTACACGGTCTTGTAGCAAAATATTGTGTTGAAGGAAAAACACATT
TAGTAACTGCAAGCTATGAATCTGATGAGGTTAAATCATATCATAAAGCTGCTAAAGCCG
CAGGAATTACAATCTTGTCAGAATGTGGTTTGGATCCCGGCATTGATCACTTACTAGCAA
TGGAATGTTTTCATGATGTACAAGAAAATGGTGGAGTAATCGAATCATTTGTGAGTTATT
GTGGTGGTTTTCCAGCGCCAGAATTTTCTGATAATCCTTTAAGATATAAATTTTCTTGGA
GTCCACGCGGTGCAATAATAAATACTCTTTCTGCAGCAAAATATTTAAGTAAGGGACAAA
TAGTTGAAATTTCAGGTGGTGGCGATTTAATGTCAACAACAAAAGAATTAAATTTTCTTC
CTGGATTTTCATTGGAAGGATTTCCTAATCGCGATTCACTTCAATATTTACAACTTTACG
GATTAGGACCACAAGTTCATACATTTGTACGTGGAACTATTCGTTATAAGGGATTTACAG
AGTGCATTAAAACTATGCAATTGTTAGGACTCATTGATACAGAACCTCATCCCATGTTAC
ATCCATCGGGACCAGATGTAACTTGGCGTCAACTCTTAATTAATCTTCTTGGTTTAATTG
ATGAGGGAATATTTTATGAAAACTTGAAAATGAAATTAGCTGATCGAGTAGGTAACCCTG
ATTATTTAGAAAACCTTGGTCTTTTGGAGGAGGATCTCATAGTAAAACAAGGAACTCCTC
TTGATACATTGATTTATTATTTATCAAAGAAATTA
>g11730.t3 Gene=g11730 Length=709
MPLLDAVIEKNIRLIDYEKLMDRNGLRLVAFGKYAGVAGMVNILHGLGLRLLALGHHTPF
MQISPAHNYRNSMMARQAVRDCGYEISLGMMPKSIGPITFIFTGTGSVSQGAQQIFQELP
VEYVPPDMLRKVAEHGSQNKLYGCEVSRSDHLERREGGGFDPIGKYEQFPERYISTFSKK
IAPYASVIVNGIYWAVGSPKLITIPDAKNLLRPANTPWLPSSVGAPSLPHRMLAICDISA
DPGGSIEFMNECTTIDTPFCLYDADRNKDTKSFKGPGVLVCSIDNMPTQLPTEATDYFGE
LLYPYALDILKSDASKPLEEHNFLPEVEGAIIASNGKLTPNFEYINELREANVRKNKIDG
ATFSKRVLVLGAGMVSAPLVEYLSRDNELSMKVCSQVKEEADRLAFRYNNVESFYMDVRN
NQEHLAKLCEEADCVVSLLPYALHGLVAKYCVEGKTHLVTASYESDEVKSYHKAAKAAGI
TILSECGLDPGIDHLLAMECFHDVQENGGVIESFVSYCGGFPAPEFSDNPLRYKFSWSPR
GAIINTLSAAKYLSKGQIVEISGGGDLMSTTKELNFLPGFSLEGFPNRDSLQYLQLYGLG
PQVHTFVRGTIRYKGFTECIKTMQLLGLIDTEPHPMLHPSGPDVTWRQLLINLLGLIDEG
IFYENLKMKLADRVGNPDYLENLGLLEEDLIVKQGTPLDTLIYYLSKKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g11730.t3 | CDD | cd12189 | LKR_SDH_like | 1 | 349 | 0 |
| 9 | g11730.t3 | Gene3D | G3DSA:3.40.50.720 | - | 362 | 479 | 0 |
| 10 | g11730.t3 | Gene3D | G3DSA:3.30.360.10 | Dihydrodipicolinate Reductase; domain 2 | 488 | 632 | 0 |
| 3 | g11730.t3 | PANTHER | PTHR11133:SF21 | ALPHA-AMINOADIPIC SEMIALDEHYDE SYNTHASE, MITOCHONDRIAL | 1 | 709 | 0 |
| 4 | g11730.t3 | PANTHER | PTHR11133 | SACCHAROPINE DEHYDROGENASE | 1 | 709 | 0 |
| 2 | g11730.t3 | Pfam | PF03435 | Saccharopine dehydrogenase NADP binding domain | 367 | 483 | 0 |
| 1 | g11730.t3 | Pfam | PF16653 | Saccharopine dehydrogenase C-terminal domain | 487 | 709 | 0 |
| 8 | g11730.t3 | SMART | SM01002 | AlaDh_PNT_C_2 | 78 | 282 | 0 |
| 6 | g11730.t3 | SUPERFAMILY | SSF52283 | Formate/glycerate dehydrogenase catalytic domain-like | 1 | 112 | 0 |
| 5 | g11730.t3 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 365 | 541 | 0 |
| 7 | g11730.t3 | SUPERFAMILY | SSF55347 | Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain | 488 | 709 | 0 |
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:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
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.
