General information for g10600.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable asparagine–tRNA ligase, mitochondrial.
Parent gene
- The parent gene g10600 is located on chr_1: 10602851..10603731 (- 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 | g10600 | g10600.t1 | TTS | g10600.t1 | 10602282 | 10602282 |
| chr_1 | g10600 | g10600.t1 | isoform | g10600.t1 | 10602349 | 10603731 |
| chr_1 | g10600 | g10600.t1 | exon | g10600.t1.exon1 | 10602349 | 10603731 |
| chr_1 | g10600 | g10600.t1 | cds | g10600.t1.CDS1 | 10602349 | 10603731 |
| chr_1 | g10600 | g10600.t1 | TSS | g10600.t1 | 10603908 | 10603908 |
Sequences
>g10600.t1 Gene=g10600 Length=1383
ATGTTTATTAATCTTATCAAACGAAAAATTTCGACAGCAAGTTTAAGTGAAATTTTTAAG
AAATGTAATATTGATCAACAAATAAAAGTAAGAGGATGGGTAAAAACTACACGAATAATG
AAGGATGTAATATTCTGTGATATTAATGATGGTTCGACAGGACAAAATCTTCAACTTGTG
TGTAACAAAACTCAAAAATCTAAATTGATTTTTGGTTCTTCTATTGAAGCAAAAGGATTA
CTTTCACAAACACCAAAAGGACAACTAGAAGTAAAAGTAGATGAAATTAAAGTTATCGGA
GACTGTCCAACTCAAAATTATCCATATGTAGCTCGAACACTTTATTCCTCAGAATATATT
CGTGAAAATCTTCACTTCCGATCACGAGTTAGTTCTTTTAACTCAATGATTCGTTGTCGT
CATCAATTAACAAACATTATTAATAATTATCTCTTTAATGAAGGATTTATTCAAATTCAT
ACACCAATTTTGACGTCAAATGACTGTGAGGGTGCAGGAGAAGTTTTTATTGTAAAACCT
GATAATGATGACTTATTGAAAATTATGAAAAAAAATAAGGATGATCCAAATGAAAAGGCT
TATTTTGATCATAAGGCATTTCTTACAGTTAGCGGTCAATTGCATTTAGAAGCAATGGCT
CATGGTTTAACAAAAGTTTACACATTCAATCCAGCATTTCGAGCAGAAAATTGTAAATCT
GCAGTTCATTTGTCTGAATTTTACATGTTAGAATTGGAAGAAAGTTTTATAGAATCACTC
GATGATGTGATTGCAACAATTACCAAAATGTTTAAAAGTGTAACTAAAGAATTTTTAGAT
AAATCTATAGATGATGTCAAAAGAATAAATAAAGATAATATTGAAGAAAGATTCAATTGG
CTAGAAAAGGATTTTAAAATACTGACATATGATGAGGCCTTTAAAATAATAAAAGAAAAT
GAACATAAATTAAAAACAACTGTGAACTACAAAGATGGAATTTCGAAAGAGCAGGAAATT
TTTCTCACACAAGACTATTGCAAAGTTCCATGTTTTGTAATTGATTGGCCTAAAGAGCAA
AAATCATTCTACATGCGCCAAAAAAAAGATAATATGAATTTAGTAGAAGCATTTGATTTT
CTCATACCTCAAGTTGGTGAAGTAGCTGGTGGAAGTGTTCGTGAAGATAATTATGATATA
TTAAAATCTAAAATGTCTTCAGATCAAAGTTTAGAATGGTATTTAAATCTTAGAAAATAT
GGTTCTGTTACAACTGGTGGCTTCGGCTTAGGATTTGAAAGATATCTTCAATATTTACTT
GATATTCATAGTATTAAAGATGTGATTCCATTTCCACGATGGGCACACAATTGTCAGATG
TGA
>g10600.t1 Gene=g10600 Length=460
MFINLIKRKISTASLSEIFKKCNIDQQIKVRGWVKTTRIMKDVIFCDINDGSTGQNLQLV
CNKTQKSKLIFGSSIEAKGLLSQTPKGQLEVKVDEIKVIGDCPTQNYPYVARTLYSSEYI
RENLHFRSRVSSFNSMIRCRHQLTNIINNYLFNEGFIQIHTPILTSNDCEGAGEVFIVKP
DNDDLLKIMKKNKDDPNEKAYFDHKAFLTVSGQLHLEAMAHGLTKVYTFNPAFRAENCKS
AVHLSEFYMLELEESFIESLDDVIATITKMFKSVTKEFLDKSIDDVKRINKDNIEERFNW
LEKDFKILTYDEAFKIIKENEHKLKTTVNYKDGISKEQEIFLTQDYCKVPCFVIDWPKEQ
KSFYMRQKKDNMNLVEAFDFLIPQVGEVAGGSVREDNYDILKSKMSSDQSLEWYLNLRKY
GSVTTGGFGLGFERYLQYLLDIHSIKDVIPFPRWAHNCQM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g10600.t1 | CDD | cd04318 | EcAsnRS_like_N | 27 | 100 | 0.0000000 |
| 11 | g10600.t1 | Gene3D | G3DSA:2.40.50.140 | - | 4 | 104 | 0.0000000 |
| 10 | g10600.t1 | Gene3D | G3DSA:3.30.930.10 | Bira Bifunctional Protein; Domain 2 | 105 | 460 | 0.0000000 |
| 3 | g10600.t1 | PANTHER | PTHR22594:SF34 | ASPARAGINE–TRNA LIGASE, MITOCHONDRIAL-RELATED | 20 | 460 | 0.0000000 |
| 4 | g10600.t1 | PANTHER | PTHR22594 | ASPARTYL/LYSYL-TRNA SYNTHETASE | 20 | 460 | 0.0000000 |
| 7 | g10600.t1 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 208 | 220 | 0.0000028 |
| 5 | g10600.t1 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 224 | 237 | 0.0000028 |
| 6 | g10600.t1 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 415 | 429 | 0.0000028 |
| 1 | g10600.t1 | Pfam | PF01336 | OB-fold nucleic acid binding domain | 29 | 99 | 0.0000000 |
| 2 | g10600.t1 | Pfam | PF00152 | tRNA synthetases class II (D, K and N) | 118 | 454 | 0.0000000 |
| 13 | g10600.t1 | ProSiteProfiles | PS50862 | Aminoacyl-transfer RNA synthetases class-II family profile. | 143 | 450 | 19.2210000 |
| 9 | g10600.t1 | SUPERFAMILY | SSF50249 | Nucleic acid-binding proteins | 22 | 102 | 0.0000000 |
| 8 | g10600.t1 | SUPERFAMILY | SSF55681 | Class II aaRS and biotin synthetases | 117 | 454 | 0.0000000 |
| 14 | g10600.t1 | TIGRFAM | TIGR00457 | asnS: asparagine–tRNA ligase | 15 | 459 | 0.0000000 |
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:0006421 | asparaginyl-tRNA aminoacylation | BP |
| GO:0005524 | ATP binding | MF |
| GO:0006418 | tRNA aminoacylation for protein translation | BP |
| GO:0000166 | nucleotide binding | MF |
| GO:0004816 | asparagine-tRNA ligase activity | MF |
| GO:0004812 | aminoacyl-tRNA ligase activity | MF |
| GO:0003676 | nucleic acid binding | MF |
KEGG
Orthology
- This transcript has been annotated with K01893 (asparaginyl-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.
