General information for g6471.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Aspartate–tRNA ligase, mitochondrial.
Parent gene
- The parent gene g6471 is located on chr_2: 17205058..17206756 (+ 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 | g6471 | g6471.t1 | TSS | g6471.t1 | 17201744 | 17201744 |
| chr_2 | g6471 | g6471.t1 | isoform | g6471.t1 | 17201865 | 17205058 |
| chr_2 | g6471 | g6471.t1 | exon | g6471.t1.exon1 | 17201865 | 17201921 |
| chr_2 | g6471 | g6471.t1 | cds | g6471.t1.CDS1 | 17201865 | 17201921 |
| chr_2 | g6471 | g6471.t1 | exon | g6471.t1.exon2 | 17201991 | 17202048 |
| chr_2 | g6471 | g6471.t1 | cds | g6471.t1.CDS2 | 17201991 | 17202048 |
| chr_2 | g6471 | g6471.t1 | exon | g6471.t1.exon3 | 17202113 | 17202519 |
| chr_2 | g6471 | g6471.t1 | cds | g6471.t1.CDS3 | 17202113 | 17202519 |
| chr_2 | g6471 | g6471.t1 | exon | g6471.t1.exon4 | 17202581 | 17205058 |
| chr_2 | g6471 | g6471.t1 | cds | g6471.t1.CDS4 | 17202581 | 17205058 |
| chr_2 | g6471 | g6471.t1 | TTS | g6471.t1 | NA | NA |
Sequences
>g6471.t1 Gene=g6471 Length=3000
ATGTTATTGAATTCAATTCAAGCAAAGCAATGCGCTTTAGGCTTTCGGCGTATTTTTACA
ATCTCACGATTAATAGAAAAATTAGGAAATAGAGGAATCTATCCAGCGATGTCATATCGA
AATAGAGAAGTGACAAGAGATGAAATCTTCAATAGATATGGATTCACCTCAGCAGCACCT
CAACGTTCAAGCTGGGAAGAATCGTTTTCATTAATGACAGAAAGTTTACATCAGATGAGA
AATACATTTCGAAACACACAGATACCACAAACAATTTACACTGTTAATTGTGGTGAATTA
CGAGCAAAAGATGAGGGAATGAGAATAAAAATTTCCGGGAAAGTTGTTAAAAGACCTCGT
GCAGGACGTTTTCTTGAAATTAAAGATTTAAAAGGGTGCACTCAACTTGTTGCGAAAGAC
GATAAACCAGAAATTCTCGTGAAATTTCAAGCTATACCTTCTGATACCTATATTTGTATT
ATAGGAACTGTGCAATTGAGACCAAATAATTTCATTAATAACTCTATATCTACAGGTGCT
ATTGAAGTGGCTGTTGAAGAATTTGATAGAGTTATACTTCCTATTACGAGCAATATTGGA
AGAAGCAATGATACAAACCAATTTGACAGTCAATCTCGCTCTTATTCAACAAATACATCA
ACAAAATCAAGAGGTATAACTAGTATAGAATATAAGAAATCAGCTTCGGAAAATATTGTA
CAATATTTCGTGAATCGTCAATTAACATGTGGTGAATTGAGGAGAGAAGATGTTGGTCGC
ACAGTTACTCTAGTTGGTTGGTTAGATTCAAAGAAACATGGAAAGTTTCTTCATTTGAAA
GATGGATATGGAATAACACAAGTAATAATTGATACAGATGATTTAAATATGAAACAACTA
GCAGCAAATGTTCAAGAAAATGATATTGTTCAAATTAAAGGTCGTGTTATTTCTCGACCA
CCTGGAATGGTTCGAATGAACGTTGAGACAGGTGAAATTGAGGTTTTAGTAACAGATTTT
AAAATTCTCGATCCAAATGAACCATATATTAATGAAAATGATGACACCTCGAAGAACGAT
GATGATATGCAAGTTGAAACGAATGAACCAAGAACTTCCTCGTCTTTTCCATCTGGTATA
TCTCAAAAAATTGATAAGCCTAAAATTAATATGTTCACATATCGTACTCATAACTGTGGA
GAATTAACTGAAGCCAATATTGGTCAAGAAGTTACACTTTGTGGTTGGCTTGAATTTCAA
CGAATGTCAAAATTTTTTACACTGCGTGATGGTTACGGATGTACTCAAGTAATTATACCT
GATGAACTATGTAATGCTTATAATATTGAGCAGGTATCTTATGAAAGCATTTTAAAAGTA
AATGGTCTTGTTCTTGCTCGTCCGATTGGCATGCGAAATGAGACAATGAGTACAGGAAAT
ATTGAAGTAGTAATGAAAAATTTTACAGTTCTCAATGAAGCGAAAAAAAATCTTCCAATT
GAAATAAGAAACTTTAATAGACCTAAGGAAAATTTACGTATGGAATATCGCTATTTAGAT
TTGAGATATAGTGATATGCAAAGAAATTTACGTACTCGTTCAAAAGTTTTAATGAAGATG
CGTGAATATCTTATTAATTACTGTGGTTTTGTTGAAGTCGAAACGCCTACGCTTTTTAGA
CGAACTCCTGGTGGTGCTCAAGAATTTGTTGTACCAACTCGTCGTCCAGGAAAATTTTAT
TCACTCGTTCAAAGTCCACAACAATTTAAACAAATGTTAATGGTTGGCGCAATTGATCGT
TATTTTCAAATTGCACGATGCTATCGAGATGAAGCGACTAGACCAGATCGACAGCCTGAG
TTTACACAACTTGATATTGAACTTTCGTTTACTGATCGTGAAAGCATCATGTCATTAGTC
GAGGGAATTTTAGTAAATTGTTGGCCAGAAAGTAATGGAACTCTTTCTACACCATTCCAA
AAAATGACTTTTGATGAAGTCATGGAAAAGTATGGATCAGATAAGCCAGATTTACGTTTT
GATATGCAATTGCAAAATGTCACAAATTTATTATCTCTCAACGAAGATATGGCAAAATCT
TTTTCTAATTTTGCTTCTTATGCTTTAGTTCTAAAGCATCCTCAATCGAATGTTAAAAAT
AATCTTAAAAGAGAACTAAAAGAGTTAGAAATGAATTTAAAAGCACATCTTGTAATTAGT
AAAATTGCTGCAAATTCTATCATTGATTGGTGTGATGGACCACTTAAAAATCTTTTTACT
ACAGTTGTTCTAAAAGCATTAGCAGCAAATTTGCATTTAGAACCAAATGATATGCTAATT
ATTGCATATGGCAAAAAAATTGACTGCCAAACATTAATGGGTAAAGTTAGATTACGACTC
TATGATGATCTAGAAGAGCGAGGTTTAGTTGCTGAAAGAGCTAAAGAAGAAAATAAATTT
TTATGGGTAATTGACTTTCCTCTCTTTACTGAAAATGATGAAACTGGTATTCTAGAAAGC
ACACATCATCCATTTACTGCCCCACATCCTGACGATAGAAATTTATTAGCAGATGCATCA
ACACGACCTTTAGCTCGCTCACTTGCTTATGATTTAGTTTTAAATGGACAAGAAATTGGT
GGCGGATCGATTCGTATTCATGAGGCAAAATTACAAAAATATGTCTTAGATGAAATTCTC
AAGTTAGAAAGACAACATTTAAGTCATATGATTGAAGCACTTCAAAGTGGTGCTCCTCCT
CATGGAGGAATCGCTCTAGGTATTGATAGATTGATATCAATAATTTGCAATACAAATTCA
ATTCGTGACGTAATTGCATTTCCGAAAGGTGTGGAAGGTAAAGATCCTTTATCGAAAGCT
CCTGTAGAAATTTCTGAAGAAGAGAAAAAAATGTATCACATAACAATCAATAGTGAAAAA
GAAAAGAATAAATCAGAGGAAAATCAATCTAACAATGAAAAGCTTCTACTTAATCAATAA
>g6471.t1 Gene=g6471 Length=999
MLLNSIQAKQCALGFRRIFTISRLIEKLGNRGIYPAMSYRNREVTRDEIFNRYGFTSAAP
QRSSWEESFSLMTESLHQMRNTFRNTQIPQTIYTVNCGELRAKDEGMRIKISGKVVKRPR
AGRFLEIKDLKGCTQLVAKDDKPEILVKFQAIPSDTYICIIGTVQLRPNNFINNSISTGA
IEVAVEEFDRVILPITSNIGRSNDTNQFDSQSRSYSTNTSTKSRGITSIEYKKSASENIV
QYFVNRQLTCGELRREDVGRTVTLVGWLDSKKHGKFLHLKDGYGITQVIIDTDDLNMKQL
AANVQENDIVQIKGRVISRPPGMVRMNVETGEIEVLVTDFKILDPNEPYINENDDTSKND
DDMQVETNEPRTSSSFPSGISQKIDKPKINMFTYRTHNCGELTEANIGQEVTLCGWLEFQ
RMSKFFTLRDGYGCTQVIIPDELCNAYNIEQVSYESILKVNGLVLARPIGMRNETMSTGN
IEVVMKNFTVLNEAKKNLPIEIRNFNRPKENLRMEYRYLDLRYSDMQRNLRTRSKVLMKM
REYLINYCGFVEVETPTLFRRTPGGAQEFVVPTRRPGKFYSLVQSPQQFKQMLMVGAIDR
YFQIARCYRDEATRPDRQPEFTQLDIELSFTDRESIMSLVEGILVNCWPESNGTLSTPFQ
KMTFDEVMEKYGSDKPDLRFDMQLQNVTNLLSLNEDMAKSFSNFASYALVLKHPQSNVKN
NLKRELKELEMNLKAHLVISKIAANSIIDWCDGPLKNLFTTVVLKALAANLHLEPNDMLI
IAYGKKIDCQTLMGKVRLRLYDDLEERGLVAERAKEENKFLWVIDFPLFTENDETGILES
THHPFTAPHPDDRNLLADASTRPLARSLAYDLVLNGQEIGGGSIRIHEAKLQKYVLDEIL
KLERQHLSHMIEALQSGAPPHGGIALGIDRLISIICNTNSIRDVIAFPKGVEGKDPLSKA
PVEISEEEKKMYHITINSEKEKNKSEENQSNNEKLLLNQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 25 | g6471.t1 | CDD | cd04317 | EcAspRS_like_N | 395 | 526 | 4.61669E-52 |
| 24 | g6471.t1 | Coils | Coil | Coil | 719 | 739 | - |
| 20 | g6471.t1 | Gene3D | G3DSA:2.40.50.140 | - | 90 | 192 | 1.1E-16 |
| 22 | g6471.t1 | Gene3D | G3DSA:2.40.50.140 | - | 238 | 347 | 4.4E-27 |
| 21 | g6471.t1 | Gene3D | G3DSA:2.40.50.140 | - | 386 | 497 | 2.3E-31 |
| 19 | g6471.t1 | Gene3D | G3DSA:3.30.930.10 | Bira Bifunctional Protein; Domain 2 | 509 | 974 | 6.7E-168 |
| 23 | g6471.t1 | Gene3D | G3DSA:3.30.1360.30 | - | 663 | 814 | 6.7E-168 |
| 9 | g6471.t1 | Hamap | MF_00044 | Aspartate–tRNA(Asp/Asn) ligase [aspS]. | 394 | 977 | 27.999428 |
| 27 | g6471.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 348 | 378 | - |
| 26 | g6471.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 351 | 367 | - |
| 28 | g6471.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 976 | 999 | - |
| 5 | g6471.t1 | PANTHER | PTHR22594:SF5 | ASPARTATE–TRNA LIGASE, MITOCHONDRIAL | 84 | 190 | 3.0E-251 |
| 8 | g6471.t1 | PANTHER | PTHR22594 | ASPARTYL/LYSYL-TRNA SYNTHETASE | 84 | 190 | 3.0E-251 |
| 4 | g6471.t1 | PANTHER | PTHR22594:SF5 | ASPARTATE–TRNA LIGASE, MITOCHONDRIAL | 220 | 363 | 3.0E-251 |
| 7 | g6471.t1 | PANTHER | PTHR22594 | ASPARTYL/LYSYL-TRNA SYNTHETASE | 220 | 363 | 3.0E-251 |
| 3 | g6471.t1 | PANTHER | PTHR22594:SF5 | ASPARTATE–TRNA LIGASE, MITOCHONDRIAL | 381 | 975 | 3.0E-251 |
| 6 | g6471.t1 | PANTHER | PTHR22594 | ASPARTYL/LYSYL-TRNA SYNTHETASE | 381 | 975 | 3.0E-251 |
| 13 | g6471.t1 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 582 | 594 | 2.2E-21 |
| 10 | g6471.t1 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 599 | 612 | 2.2E-21 |
| 11 | g6471.t1 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 870 | 886 | 2.2E-21 |
| 12 | g6471.t1 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 911 | 925 | 2.2E-21 |
| 1 | g6471.t1 | Pfam | PF01336 | OB-fold nucleic acid binding domain | 262 | 343 | 5.8E-10 |
| 2 | g6471.t1 | Pfam | PF00152 | tRNA synthetases class II (D, K and N) | 510 | 949 | 1.8E-94 |
| 30 | g6471.t1 | ProSiteProfiles | PS50862 | Aminoacyl-transfer RNA synthetases class-II family profile. | 530 | 948 | 19.263 |
| 18 | g6471.t1 | SUPERFAMILY | SSF50249 | Nucleic acid-binding proteins | 94 | 188 | 4.5E-12 |
| 17 | g6471.t1 | SUPERFAMILY | SSF50249 | Nucleic acid-binding proteins | 246 | 344 | 1.13E-19 |
| 16 | g6471.t1 | SUPERFAMILY | SSF50249 | Nucleic acid-binding proteins | 394 | 494 | 1.74E-21 |
| 14 | g6471.t1 | SUPERFAMILY | SSF55681 | Class II aaRS and biotin synthetases | 510 | 949 | 1.22E-89 |
| 15 | g6471.t1 | SUPERFAMILY | SSF55261 | GAD domain-like | 680 | 804 | 1.59E-6 |
| 29 | g6471.t1 | TIGRFAM | TIGR00459 | aspS_bact: aspartate–tRNA ligase | 395 | 975 | 1.5E-164 |
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:0005524 | ATP binding | MF |
| GO:0006418 | tRNA aminoacylation for protein translation | BP |
| GO:0000166 | nucleotide binding | MF |
| GO:0004812 | aminoacyl-tRNA ligase activity | MF |
| GO:0005737 | cytoplasm | CC |
| GO:0016874 | ligase activity | MF |
| GO:0003676 | nucleic acid binding | MF |
KEGG
Orthology
- This transcript has been annotated with K01876 (aspartyl-tRNA synthetase)
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.
