General information for g1175.t47
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1175 is located on chr_3: 8489656..8492512 (- 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_3 | g1175 | g1175.t47 | TTS | g1175.t47 | 8488936 | 8488936 |
| chr_3 | g1175 | g1175.t47 | isoform | g1175.t47 | 8489656 | 8492512 |
| chr_3 | g1175 | g1175.t47 | exon | g1175.t47.exon1 | 8489656 | 8489838 |
| chr_3 | g1175 | g1175.t47 | exon | g1175.t47.exon2 | 8489975 | 8490242 |
| chr_3 | g1175 | g1175.t47 | cds | g1175.t47.CDS1 | 8490015 | 8490242 |
| chr_3 | g1175 | g1175.t47 | exon | g1175.t47.exon3 | 8490302 | 8490348 |
| chr_3 | g1175 | g1175.t47 | cds | g1175.t47.CDS2 | 8490302 | 8490348 |
| chr_3 | g1175 | g1175.t47 | exon | g1175.t47.exon4 | 8490397 | 8490439 |
| chr_3 | g1175 | g1175.t47 | cds | g1175.t47.CDS3 | 8490397 | 8490439 |
| chr_3 | g1175 | g1175.t47 | exon | g1175.t47.exon5 | 8490509 | 8490571 |
| chr_3 | g1175 | g1175.t47 | cds | g1175.t47.CDS4 | 8490509 | 8490562 |
| chr_3 | g1175 | g1175.t47 | exon | g1175.t47.exon6 | 8492422 | 8492512 |
| chr_3 | g1175 | g1175.t47 | TSS | g1175.t47 | NA | NA |
Sequences
>g1175.t47 Gene=g1175 Length=695
TTATCGTGGAGGAGGAAAGTTTGGCCTCATCATCCCAGGGGGTGGTGCACGAGGCATTCC
GGGTACAACCATTGGTGGTCTCTATTATATTCCATATGAGATGGTGCTGGGCCCATTCCT
CTCACTGGTCCAGTTAATCCAGGAGCTGCACCTTCCATTGCCATTGCTGGTGGCATACCT
CGTCCTACAATATTTTACTCGTCCAACGCCTGGACCTCCAGGAATTGGCACACGCGGCAT
GCCTTCTTCTGGTGGCGGTGGACCTTCCACAGTTAATGAAACTATATTTTCTCCTCGAAG
TAACACAAATCCAAGAACTCTTTTTTCTTCACGATCTGGCAATTTGGTATTCTTCTGTTT
AATTTTTCTGAATTCTTCGCAGTCTCCTAAAATCAGATTCATATGTTTGTCGAATGCCTT
AAAAGTACCAATAAATGTTCTTGAATCTTGTAGCACAATGCGAACTCGATAGTTCAAGTG
CTGAATCATCTTATTATTCTTTCCGATTGTCTTTTTGACAGCTATTTATCTTCCTATTAC
TTTAGGACTAAATAATCTGCTTTAAAGTAATAAAAGCAGCAAAATGCTAAAAAAAAGTAT
TTAATCGGCTTCTTGAAAATTTCCCTTTGCTGCAAAGAACAAACAAACAAAGTTTTTTCT
TCCCTTGTAAAAAATTTTAAAAACGAGAATCAAAA
>g1175.t47 Gene=g1175 Length=123
MVLGPFLSLVQLIQELHLPLPLLVAYLVLQYFTRPTPGPPGIGTRGMPSSGGGGPSTVNE
TIFSPRSNTNPRTLFSSRSGNLVFFCLIFLNSSQSPKIRFICLSNALKVPINVLESCSTM
RTR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g1175.t47 | PANTHER | PTHR10701:SF19 | - | 35 | 118 | 5.7E-18 |
| 2 | g1175.t47 | PANTHER | PTHR10701 | SMALL NUCLEAR RIBONUCLEOPROTEIN-ASSOCIATED PROTEIN B AND N | 35 | 118 | 5.7E-18 |
| 4 | g1175.t47 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 5 | g1175.t47 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 29 | - |
| 3 | g1175.t47 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 30 | 123 | - |
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. There were no conditions that were differentially expressed