General information for g10610.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Non-specific lipid-transfer protein.
Parent gene
- The parent gene g10610 is located on chr_1: 10711241..10713513 (- 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 | g10610 | g10610.t6 | TTS | g10610.t6 | 10708315 | 10708315 |
| chr_1 | g10610 | g10610.t6 | isoform | g10610.t6 | 10708338 | 10711241 |
| chr_1 | g10610 | g10610.t6 | exon | g10610.t6.exon1 | 10708338 | 10709171 |
| chr_1 | g10610 | g10610.t6 | exon | g10610.t6.exon2 | 10709240 | 10709440 |
| chr_1 | g10610 | g10610.t6 | cds | g10610.t6.CDS1 | 10709422 | 10709440 |
| chr_1 | g10610 | g10610.t6 | exon | g10610.t6.exon3 | 10709521 | 10710337 |
| chr_1 | g10610 | g10610.t6 | cds | g10610.t6.CDS2 | 10709521 | 10710337 |
| chr_1 | g10610 | g10610.t6 | exon | g10610.t6.exon4 | 10710729 | 10710858 |
| chr_1 | g10610 | g10610.t6 | cds | g10610.t6.CDS3 | 10710729 | 10710858 |
| chr_1 | g10610 | g10610.t6 | exon | g10610.t6.exon5 | 10711197 | 10711241 |
| chr_1 | g10610 | g10610.t6 | cds | g10610.t6.CDS4 | 10711197 | 10711241 |
| chr_1 | g10610 | g10610.t6 | TSS | g10610.t6 | 10711331 | 10711331 |
Sequences
>g10610.t6 Gene=g10610 Length=2027
ATGGGAAAACAACGAGTTTTTGTTATTGGATGTGGTATGACAAAGTTCGAAAAGCCTGGT
AGACGACAGGATTTCGATTATCCTGATATGGCCAAAGAAGCTGTCACAAAAGCACTGAAA
GATGCCAAAATTGACTATAGAGAAATTAAACAAGCTGTTTGTGGATTTTGTTATGGCGAG
TCATGCAGTGGTCAAAGAGCACTCTATCAAATGGGAATGACTGGAATTCCAATCTATAAT
GTCAACAATAATTGTTCAACTGGTGCATCTGCATTGATTCTTGCTAAGCAACTTATTGAA
ACAGGTCAAAATGATTGTGTACTTGCACTTGGTTTTGAAAAAATGGAACGAGGATCGCTT
GGAACAAAATGGACTGATCGAACAATTCCACTTGATAAACATTTTGAAGTCATGATGGAA
ATTGATGGTATGACTGCTGCACCACCTGCAGCTCAACTCTTTGGCAATGCTGGTGAAGAA
CATATGAGAAAGTATGGCTCAAAACCGGAACATTTCGCTAAAATCGCGTACAAAAATCAC
AAGCATTCTGTCAACAATCCTTACTCACAATTTAGAGATGAATATACTTTGGAGCAAGTG
AAATCTTCACCTAACGTTCATCGTGTCCTTACAAAACTTCAATGTTGTCCAACTTCAGAT
GGTTCAGCTTGCTGTATTGTTGCTAATGAGGATTTTGTTCGTCGTCATAAGCTCGAAGCT
CAGGCAGTTGAAATTCTCGCTATGGAAATGTGTACTGACTTAGAGTCGACATTCTCAGAA
AAAAGTGCAATTAAATTAGTTGGCTATGATATGGCAAAGAAAGCAGCAGAAAAAGTCTTT
ACTCAAACTAATTATAAGCCTCAAGATGTTGATGTTGTTGAGCTTCACGATTGTTTCTCA
GCCAACGAGCTAATTACCTATGAGGCATTGGGACTTTGTCCCGAGGGCAAAGCACATGAG
CTAATTGATAGAAACGACAACACTTATGGTTTGTGGCAAATATGTGATTAATCCAAGTGG
TGGTTTGATTTCGAAAGGACATCCTTTGGGTGCAACTGGTCTGGCACAATGTTCTGAACT
ATGCTGGCAATTAAGAGGTGAAGCTGATAAACGTCAAGTACCAAATTGTAATTTGGCACT
TCAACATAATGTTGGTTTGGGTGGAGCTGTTGTGGTTGGTCTTTATAAATTAGGTTTTCC
TGAAACACGTAAACCACAAAATTTGAGTGTAGCATCAGTACCAGGTAGTGGTGGCAAGAA
GCAAGCTGGAAATAGTAAAATTAAACCAACACCTGATGGTTTCCTCGTATCGCCACTCAT
GGAAATATTCGAGCAAGCCATGGCTGAAGACAAGGAAAATTTAATCGAAAAAGTTCGCGG
AATTTATGGGTTTAGAGTAACCAATGGACCGAATGGCGCTGAAGGTTACTGGGTTATCAA
CGCTAAAGAAGGCAAGGGTAAAATTACGTACAACGGAACTGAAAAACCGGACGTAACATT
TATCATCAATGATAAGGATGTAACAGAATTAATCAAGGGTGAAATCAATCCCCAAAAAGC
ATTTTTCCAAGGCAAGGTGAAAGTTTCAGGCAACATGGGACTCGCAATGAAGCTCGTTGA
CTTGCAACGAACAGCTCAACATCGCATTGAAGAACTGAGAATAAAGCATAAATTATAAAG
TGATGAATTACCTGGTGATGTTTGCTTTATTACTTTTTTATTTTTTATAAGCTGTGAAAA
GTTGGAAAATTTTTATTCATTCTCAAGTGAGATAAATTACCATAAATTCTTTTATTCAAT
ATATGGCAATGATTTAATGAAATTAAAAAACTATTTTTTATTATGACGGTGATATGGTGT
TACATTTATTATTATTATTATTTTAATATCATAAATTCTTTCATTCCTACCAAAAAACAG
TGGTTTAAAAAATTTATGAGGGTTTGTTGGTGCTTCTTACACATTCATATATAAATATTG
TATAAGTTAAATTGTTTTTCTACTGTGCACATACACACAAAAAAATA
>g10610.t6 Gene=g10610 Length=336
MGKQRVFVIGCGMTKFEKPGRRQDFDYPDMAKEAVTKALKDAKIDYREIKQAVCGFCYGE
SCSGQRALYQMGMTGIPIYNVNNNCSTGASALILAKQLIETGQNDCVLALGFEKMERGSL
GTKWTDRTIPLDKHFEVMMEIDGMTAAPPAAQLFGNAGEEHMRKYGSKPEHFAKIAYKNH
KHSVNNPYSQFRDEYTLEQVKSSPNVHRVLTKLQCCPTSDGSACCIVANEDFVRRHKLEA
QAVEILAMEMCTDLESTFSEKSAIKLVGYDMAKKAAEKVFTQTNYKPQDVDVVELHDCFS
ANELITYEALGLCPEGKAHELIDRNDNTYGLWQICD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g10610.t6 | Coils | Coil | Coil | 32 | 52 | - |
| 6 | g10610.t6 | Gene3D | G3DSA:3.40.47.10 | - | 5 | 331 | 4.0E-90 |
| 2 | g10610.t6 | PANTHER | PTHR18919:SF83 | CARRIER PROTEIN, PUTATIVE (AFU_ORTHOLOGUE AFUA_4G06380)-RELATED | 3 | 322 | 1.1E-134 |
| 3 | g10610.t6 | PANTHER | PTHR18919 | ACETYL-COA C-ACYLTRANSFERASE | 3 | 322 | 1.1E-134 |
| 1 | g10610.t6 | Pfam | PF00108 | Thiolase, N-terminal domain | 6 | 195 | 6.1E-23 |
| 5 | g10610.t6 | SUPERFAMILY | SSF53901 | Thiolase-like | 6 | 238 | 4.4E-49 |
| 4 | g10610.t6 | SUPERFAMILY | SSF53901 | Thiolase-like | 214 | 319 | 7.09E-11 |
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:0016746 | acyltransferase activity | MF |
| GO:0016747 | acyltransferase activity, transferring groups other than amino-acyl groups | 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. There were no conditions that were differentially expressed