General information for g17188.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g17188 is located on chr_4: 12774362..12776386 (+ 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_4 | g17188 | g17188.t2 | TSS | g17188.t2 | 12773643 | 12773643 |
| chr_4 | g17188 | g17188.t2 | isoform | g17188.t2 | 12773706 | 12775444 |
| chr_4 | g17188 | g17188.t2 | exon | g17188.t2.exon1 | 12773706 | 12774440 |
| chr_4 | g17188 | g17188.t2 | cds | g17188.t2.CDS1 | 12774362 | 12774440 |
| chr_4 | g17188 | g17188.t2 | exon | g17188.t2.exon2 | 12774496 | 12774653 |
| chr_4 | g17188 | g17188.t2 | cds | g17188.t2.CDS2 | 12774496 | 12774653 |
| chr_4 | g17188 | g17188.t2 | exon | g17188.t2.exon3 | 12774865 | 12775444 |
| chr_4 | g17188 | g17188.t2 | cds | g17188.t2.CDS3 | 12774865 | 12775443 |
| chr_4 | g17188 | g17188.t2 | TTS | g17188.t2 | NA | NA |
Sequences
>g17188.t2 Gene=g17188 Length=1473
AATGAAAGTTATTGCTTTTAAATTTATTTAAGAATTAATAAAGAAAATAAAAATAATAAT
TATGTGTAAATATTTTTATTTTGGTTAGAGAAATAAATAATAAAAAAATTATAAACAATT
TCTCATAAATTATTGAAAGAGAGGAGGCAAAGCCAAATTTAAAGTCAATTTAATAAAAAA
AATATAAACTAGGCGTAGAAGTTCGAAAAAACAGCGTGAAAAATCGTAAAAGATCTGAAA
AATCAATAAAGATTGCAAAAAACTGAAAAGATTGTCGAGTGTCTACACTAAGGATAAAAT
ACAATATTTCAAGGCCCGAAGTCGGCTAAAACTTTATATGATGAGTTTACTAAATTAAGC
CGACTTTGAGATTCGCAATATTTCATGCTAAAATTTTTAATTTAAATTGATTACTTTTTA
TTTAATTTTAGTCCATTCTATTTTTGAGAAGAAGAATTTTCATTTGTTTTTTATCTACAA
ACCTATTTGTAAAAATCTAAAAATAAAATTTTATTATGATTTTCACAGCACATTAGTCAA
GTAGGAAAACTGAGAGAAAAACACACCAAAATCTTGTCTAAACGATAAAAACAAGCAACA
AGTGTGAAATAAAAATTTAAAAATAAATTCATTGAGAGAAGGAAAAAATATAAACAATGA
CTAAACGGATGATTGAAATTATTTTCTTAATTTTATTATGGATGAAAATGAATTCAAATG
TTATGGCCTCGAATGAAACGTCAAATTGTAGAGTAAAAGATGTTTATGTTGAAAAAGGAC
AAAATTTTAACACTGTTTGTGAATGTTTAGGAGATTCAATCACTCAAATGTCATGGTCAT
TTCAAAATTGTTCAAATTTACTATTTTCACCAGATTTTTGTCAAGGAATAAATACAACTG
GAGATTTTCAATCTGAAAATTTGATAAAATTGGAAAATTCTTTGCTTATGCCAATCAAAT
TTAATACAATGCAACCAGGAGTTATCACTTGTAAAGCATCAGGAAACTCTAAGGATGAAA
TAGTTCAAGGTTTTGTAAAAGTTATTGATTTACCAAAACCATTTGTATTAACTGGTTTTA
GTGAAAGTCATAAAATTGCTATTGGTGATTTTGTTGAACTTGAATGTGGTGCAGTAAAAT
ATGATTTTTCTAACTCAATTCAATGGATGAAAGATGGAAAACCAATAGGATATGGAGAAG
GAATTTTAATTAAAAATAGCAACACTGAATATTCATGGCGCAAAAAGTTAATTTTTAATT
CTATAAGTCATGAAAATGTAGGCAAATATGAATGTAAATCACAAAATATAAATACAAAAG
AGTTCAAAACATTATCAGTTAATATTAAAGTTTATGATCCAATTGATATTTCAATAACAA
CAAATTTCAATGAAACTACAATCACAAAAATTGTTGATGAAGTTTTAACACTTGAATGCA
ATGTTGATGGTATTCCAATGCCAACATTAATTT
>g17188.t2 Gene=g17188 Length=272
MTKRMIEIIFLILLWMKMNSNVMASNETSNCRVKDVYVEKGQNFNTVCECLGDSITQMSW
SFQNCSNLLFSPDFCQGINTTGDFQSENLIKLENSLLMPIKFNTMQPGVITCKASGNSKD
EIVQGFVKVIDLPKPFVLTGFSESHKIAIGDFVELECGAVKYDFSNSIQWMKDGKPIGYG
EGILIKNSNTEYSWRKKLIFNSISHENVGKYECKSQNINTKEFKTLSVNIKVYDPIDISI
TTNFNETTITKIVDEVLTLECNVDGIPMPTLI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g17188.t2 | CDD | cd00096 | Ig | 153 | 225 | 3.35101E-4 |
| 7 | g17188.t2 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 140 | 232 | 3.6E-10 |
| 3 | g17188.t2 | PANTHER | PTHR23278 | SIDESTEP PROTEIN | 38 | 190 | 6.0E-12 |
| 2 | g17188.t2 | PANTHER | PTHR23278 | SIDESTEP PROTEIN | 144 | 270 | 6.0E-12 |
| 1 | g17188.t2 | Pfam | PF07679 | Immunoglobulin I-set domain | 140 | 230 | 2.0E-8 |
| 9 | g17188.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 24 | - |
| 10 | g17188.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 11 | g17188.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 16 | - |
| 12 | g17188.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 24 | - |
| 8 | g17188.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 25 | 272 | - |
| 16 | g17188.t2 | ProSiteProfiles | PS50835 | Ig-like domain profile. | 133 | 229 | 10.589 |
| 14 | g17188.t2 | SMART | SM00409 | IG_3c | 142 | 231 | 2.8E-4 |
| 15 | g17188.t2 | SMART | SM00408 | igc2_5 | 148 | 220 | 2.4E-5 |
| 4 | g17188.t2 | SUPERFAMILY | SSF48726 | Immunoglobulin | 134 | 263 | 5.12E-13 |
| 6 | g17188.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 24 | - |
| 5 | g17188.t2 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 24 | - |
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