General information for g10610.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t3 | TTS | g10610.t3 | 10708315 | 10708315 |
| chr_1 | g10610 | g10610.t3 | isoform | g10610.t3 | 10708338 | 10709438 |
| chr_1 | g10610 | g10610.t3 | exon | g10610.t3.exon1 | 10708338 | 10709171 |
| chr_1 | g10610 | g10610.t3 | cds | g10610.t3.CDS1 | 10708687 | 10709046 |
| chr_1 | g10610 | g10610.t3 | exon | g10610.t3.exon2 | 10709240 | 10709438 |
| chr_1 | g10610 | g10610.t3 | TSS | g10610.t3 | NA | NA |
Sequences
>g10610.t3 Gene=g10610 Length=1033
GGCAAATATGTGATTAATCCAAGTGGTGGTTTGATTTCGAAAGGACATCCTTTGGGTGCA
ACTGGTCTGGCACAATGTTCTGAACTATGCTGGCAATTAAGAGGTGAAGCTGATAAACGT
CAAGTACCAAATTGTAATTTGGCACTTCAACATAATGTTGGTTTGGGTGGAGCTGTTGTG
GTTGGTCTTTATAAATTAGGTTTTCCTGAAACACGTAAACCACAAAATTTGAGTGTAGCA
TCAGTACCAGGTAGTGGTGGCAAGAAGCAAGCTGGAAATAGTAAAATTAAACCAACACCT
GATGGTTTCCTCGTATCGCCACTCATGGAAATATTCGAGCAAGCCATGGCTGAAGACAAG
GAAAATTTAATCGAAAAAGTTCGCGGAATTTATGGGTTTAGAGTAACCAATGGACCGAAT
GGCGCTGAAGGTTACTGGGTTATCAACGCTAAAGAAGGCAAGGGTAAAATTACGTACAAC
GGAACTGAAAAACCGGACGTAACATTTATCATCAATGATAAGGATGTAACAGAATTAATC
AAGGGTGAAATCAATCCCCAAAAAGCATTTTTCCAAGGCAAGGTGAAAGTTTCAGGCAAC
ATGGGACTCGCAATGAAGCTCGTTGACTTGCAACGAACAGCTCAACATCGCATTGAAGAA
CTGAGAATAAAGCATAAATTATAAAGTGATGAATTACCTGGTGATGTTTGCTTTATTACT
TTTTTATTTTTTATAAGCTGTGAAAAGTTGGAAAATTTTTATTCATTCTCAAGTGAGATA
AATTACCATAAATTCTTTTATTCAATATATGGCAATGATTTAATGAAATTAAAAAACTAT
TTTTTATTATGACGGTGATATGGTGTTACATTTATTATTATTATTATTTTAATATCATAA
ATTCTTTCATTCCTACCAAAAAACAGTGGTTTAAAAAATTTATGAGGGTTTGTTGGTGCT
TCTTACACATTCATATATAAATATTGTATAAGTTAAATTGTTTTTCTACTGTGCACATAC
ACACAAAAAAATA
>g10610.t3 Gene=g10610 Length=119
MEIFEQAMAEDKENLIEKVRGIYGFRVTNGPNGAEGYWVINAKEGKGKITYNGTEKPDVT
FIINDKDVTELIKGEINPQKAFFQGKVKVSGNMGLAMKLVDLQRTAQHRIEELRIKHKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10610.t3 | Gene3D | G3DSA:3.30.1050.10 | - | 1 | 113 | 0 |
| 2 | g10610.t3 | PANTHER | PTHR24314:SF20 | NON-SPECIFIC LIPID-TRANSFER PROTEIN-RELATED | 5 | 99 | 0 |
| 3 | g10610.t3 | PANTHER | PTHR24314 | NON-SPECIFIC LIPID TRANSFER PROTEIN-RELATED | 5 | 99 | 0 |
| 1 | g10610.t3 | Pfam | PF02036 | SCP-2 sterol transfer family | 7 | 102 | 0 |
| 4 | g10610.t3 | SUPERFAMILY | SSF55718 | SCP-like | 2 | 106 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
