General information for g4150.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Glypican-6.
Parent gene
- The parent gene g4150 is located on chr_3: 31008906..31017052 (+ 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 | g4150 | g4150.t2 | isoform | g4150.t2 | 31008906 | 31017052 |
| chr_3 | g4150 | g4150.t2 | exon | g4150.t2.exon1 | 31008906 | 31009221 |
| chr_3 | g4150 | g4150.t2 | cds | g4150.t2.CDS1 | 31008931 | 31009221 |
| chr_3 | g4150 | g4150.t2 | exon | g4150.t2.exon2 | 31016106 | 31016569 |
| chr_3 | g4150 | g4150.t2 | cds | g4150.t2.CDS2 | 31016106 | 31016150 |
| chr_3 | g4150 | g4150.t2 | exon | g4150.t2.exon3 | 31016626 | 31016926 |
| chr_3 | g4150 | g4150.t2 | exon | g4150.t2.exon4 | 31017000 | 31017052 |
| chr_3 | g4150 | g4150.t2 | TSS | g4150.t2 | NA | NA |
| chr_3 | g4150 | g4150.t2 | TTS | g4150.t2 | NA | NA |
Sequences
>g4150.t2 Gene=g4150 Length=1134
ATATTTAGCATGTGTTAGCGAATATATGAAAGAATTAAAGCCATTTGGTGATGTTCCTGA
TAAGCTCTCTGTTCAAGTTAAACGTTCATTTGTAGCAACGAGAACTTTTGTTCAGGCACT
TACAGCAGCTGCTGAAATTGCAAAAAATATGATGAACTTGCGACCTTTAAATGAATGTAC
ATCAGCTTTAACAAAAATGTCTTCCTGTGGTGCATGCATGGGTTACTCTGAAAAACCTTG
CGAACTTTACTGTGTAAGTGTCATGAAGCAATGCCTTCATCAATATTCAGAGCTTGGTGC
TGAGTGGGATAACTTTTCTTTGCAAAAACAAATAAATGAGATAAGACAAAGATCTGTATA
GCAATAACTTATCAATTTTGGTCTATATATATATATTCGCATATTCTGATGTGGTCATGA
AAAATATTTTAGAGAATCATTTAAATTGCATCATAACTATCTTCTGTTGGTAAAACCTTA
AATCCATTTTTAACGAAATAAAAACCGAGTTTTATTGATGACCAGACACGAGTCCAAAAA
TCAAAGTGTGGCAAAAGCTCGTAACCTCTAGCTCCAACAAAGAAATAATTATATAAAATG
CCTATGATTAGATATGAAAAGATGATTATGAATAAAATGAGAAAGAACGTATAGAAAAAT
CCATAAGATTCTTGTGGCAAAGGTGAGGTTTTACAAGCTGATTTACTAAAAAGAATTAGT
TTGACATCACTTTGTGTTGTGTTGTTTGGCGCATAGAGAATTACTTTATTCGAGTTTGGC
ATATATTCAGTATTTATTAATCTTACCTTCCATATTTCATAAATACTTCATTTTCAGATT
CAAGAAAATTAGTATTTACTTCTGTACCTAAAAGAAATGCTTTATTTTGTGAAACATCAA
GTAAGCACAACGTATATCCATTTTTGCATTCATTTGATGCTGTATCATTTAAGATATTAG
GAATTGATTTTGCATTTTTACATGGACTAAAAAAGATATGAATATCATTTGTAGCGATAG
TTTCTAGATATTCATTATTAGCTCTTAATGTTCCTCTTAAATCATATTCAGATCCGTCAT
TCATTCACACACATTTTTAAGTTCACAAGTTGATGCATTAACAGAAACTATCAT
>g4150.t2 Gene=g4150 Length=111
MKELKPFGDVPDKLSVQVKRSFVATRTFVQALTAAAEIAKNMMNLRPLNECTSALTKMSS
CGACMGYSEKPCELYCVSVMKQCLHQYSELGAEWDNFSLQKQINEIRQRSV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g4150.t2 | Coils | Coil | Coil | 99 | 111 | - |
| 2 | g4150.t2 | PANTHER | PTHR10822:SF30 | DALLY-LIKE, ISOFORM A | 1 | 98 | 3.3E-38 |
| 3 | g4150.t2 | PANTHER | PTHR10822 | GLYPICAN | 1 | 98 | 3.3E-38 |
| 1 | g4150.t2 | Pfam | PF01153 | Glypican | 2 | 97 | 1.8E-30 |
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:0062023 | collagen-containing extracellular matrix | CC |
| GO:0046658 | anchored component of plasma membrane | CC |
| GO:0009966 | regulation of signal transduction | BP |
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