General information for g11534.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11534 is located on chr_1: 16896234..16897799 (+ 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 | g11534 | g11534.t2 | TSS | g11534.t2 | 16892119 | 16892119 |
| chr_1 | g11534 | g11534.t2 | isoform | g11534.t2 | 16892120 | 16894910 |
| chr_1 | g11534 | g11534.t2 | exon | g11534.t2.exon1 | 16892120 | 16892733 |
| chr_1 | g11534 | g11534.t2 | cds | g11534.t2.CDS1 | 16892708 | 16892733 |
| chr_1 | g11534 | g11534.t2 | exon | g11534.t2.exon2 | 16893768 | 16893856 |
| chr_1 | g11534 | g11534.t2 | cds | g11534.t2.CDS2 | 16893768 | 16893856 |
| chr_1 | g11534 | g11534.t2 | exon | g11534.t2.exon3 | 16893918 | 16894017 |
| chr_1 | g11534 | g11534.t2 | cds | g11534.t2.CDS3 | 16893918 | 16894017 |
| chr_1 | g11534 | g11534.t2 | exon | g11534.t2.exon4 | 16894667 | 16894910 |
| chr_1 | g11534 | g11534.t2 | cds | g11534.t2.CDS4 | 16894667 | 16894910 |
| chr_1 | g11534 | g11534.t2 | TTS | g11534.t2 | NA | NA |
Sequences
>g11534.t2 Gene=g11534 Length=1047
ACATTTGTTTATAAGCCTTTGAGTCATACAGACATAGTTTCAGTGCTAAAGTTAATATTT
AAGATTATTTTAATCAATTTTTCTTGCTTAATTACCAAAATAAAAACAAAACACAAAACA
AACTGAAATTCTTTGTGTTGAGATAATGAAAAATTGATTTTTAGTCTCAAAGTCGCCACA
AAAAAGTGAATAAGTAAAGTAATTGAAAAAAAGAAATTTTTATTTTTTTATCAAATTGGG
AATTGAATCGCAAGTGAAATGTTTACAAGAAAGTTGGCACTTTGTATTAACTGGGCGTTT
GCCGAGCTAAAATATAAAATTTAACCTGTTGCGGTAGACAGAAGTGACGAGGCAATAGGA
AGCTAAAAAAATATTGTCGCTCAGTGCCACAATTCTAAAGAATTTTAACCTTGGAAGAAT
CAAATAAAAACGTACAATTTAGTGAGCTATAAAGTGCTAACCTGAACGAGTAGTGAACTA
AAAATTAAATTAAAGTAAATAAAAAAATTAAAAATCATGAAAGTGTGACGACAATCAAGT
GTTTCTAAGTAGTACACATTATTAATTTTCATGTGGAAAAAAATTGCTATGGAGTGGCTT
TGCGTCAAACAGATAATCATTGCAACAACCACACTGCTTACACTTGTATCTGGAACTTTT
GAGACAATGTCTCAGAATGATTTTAGATACTTGTCATATCATGATTTATTGACAACAGCT
AGTCGATTTTATGATCAAAATGTAACAACCTATTCGCGTTTTCATTTTGATGAGAGCAAA
AGTCTTATGTTCGTCGGTGCAAGAGATCGAATTTATAGATTTTCATTGCAACTTGATTTG
ATGCAAACAGTTAGTTGGGAAGTTCCAATCGGTGCTATCAAATTTTGTGTAGCTAAAGGA
CAGACTGAAAATGATTGCCGCAACTACATCATGTCACTTCACACCTTTAATAATAAATTA
TTTGTCTGCGGAAATTTTGCATTTTCTCCAAGTTGTTCATGGCGCAAGACAGACACATTG
GAATTAATAAAAGAAGAAAAGGGTTTG
>g11534.t2 Gene=g11534 Length=153
MEWLCVKQIIIATTTLLTLVSGTFETMSQNDFRYLSYHDLLTTASRFYDQNVTTYSRFHF
DESKSLMFVGARDRIYRFSLQLDLMQTVSWEVPIGAIKFCVAKGQTENDCRNYIMSLHTF
NNKLFVCGNFAFSPSCSWRKTDTLELIKEEKGL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11534.t2 | Gene3D | G3DSA:2.130.10.10 | - | 28 | 152 | 0.000 |
| 2 | g11534.t2 | PANTHER | PTHR11036:SF138 | - | 39 | 150 | 0.000 |
| 3 | g11534.t2 | PANTHER | PTHR11036 | SEMAPHORIN | 39 | 150 | 0.000 |
| 1 | g11534.t2 | Pfam | PF01403 | Sema domain | 58 | 143 | 0.000 |
| 6 | g11534.t2 | ProSiteProfiles | PS51004 | Sema domain profile. | 32 | 153 | 19.113 |
| 4 | g11534.t2 | SUPERFAMILY | SSF101912 | Sema domain | 43 | 148 | 0.000 |
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:0030215 | semaphorin receptor binding | MF |
| GO:0005515 | protein binding | 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.
