General information for g15618.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g15618 is located on chr_4: 6117608..6121037 (- 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 | g15618 | g15618.t2 | TTS | g15618.t2 | 6117416 | 6117416 |
| chr_4 | g15618 | g15618.t2 | isoform | g15618.t2 | 6117608 | 6118368 |
| chr_4 | g15618 | g15618.t2 | exon | g15618.t2.exon1 | 6117608 | 6117963 |
| chr_4 | g15618 | g15618.t2 | cds | g15618.t2.CDS1 | 6117610 | 6117750 |
| chr_4 | g15618 | g15618.t2 | exon | g15618.t2.exon2 | 6118027 | 6118080 |
| chr_4 | g15618 | g15618.t2 | exon | g15618.t2.exon3 | 6118137 | 6118178 |
| chr_4 | g15618 | g15618.t2 | exon | g15618.t2.exon4 | 6118269 | 6118368 |
| chr_4 | g15618 | g15618.t2 | TSS | g15618.t2 | NA | NA |
Sequences
>g15618.t2 Gene=g15618 Length=552
TGACCTAATTGGTGATGCTTGTGATAACAATAAAGATCGTGACCAAGATGGAATTCAAGA
CAACAGAGATAACTGCCCAGATACACCTAATGCTGAACAAGTTGATACAGATGAAGATGG
TTTAGGAGATGCTTGTGATGATGATATTGATAACGATGGAATTGAAAATGAAATTGATAA
TTGTCGATTTGTTCCAAATTATGACCAATTAGATACAGACAATAATGGAATTGGTGATGC
TTGTGAAAAAGATTTTGATGGCGATGGACATGAAAATCTTGTTGATAATTGTCCATATAA
TAATAAAATTTATACAACTGACTTTAGAACATTCCAACAAGTTCCACTTGATCCTGAAGG
AGATTCACAAATTGATCCAAAATGGGTTATTTACAATAAAGGAGCTGAAATGGTTCAAAC
AATGAATTCTGACCCTGGAATGGCTATTGGATATGACTCATTTAGCAGCGTTGATTTTGA
AGGAACACTTTTTGTTGATACTGATGTTGATGACGATTATATTGGTTTTATTTTCTCTTA
TCAATCAAACCA
>g15618.t2 Gene=g15618 Length=47
MVQTMNSDPGMAIGYDSFSSVDFEGTLFVDTDVDDDYIGFIFSYQSN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g15618.t2 | Gene3D | G3DSA:2.60.120.200 | - | 1 | 47 | 0.000 |
| 2 | g15618.t2 | PANTHER | PTHR10199 | THROMBOSPONDIN | 1 | 46 | 0.000 |
| 3 | g15618.t2 | PANTHER | PTHR10199:SF88 | CARTILAGE OLIGOMERIC MATRIX PROTEIN | 1 | 46 | 0.000 |
| 1 | g15618.t2 | Pfam | PF05735 | Thrombospondin C-terminal region | 2 | 47 | 0.000 |
| 6 | g15618.t2 | ProSiteProfiles | PS51236 | Thrombospondin C-terminal domain profile. | 1 | 47 | 24.117 |
| 4 | g15618.t2 | SUPERFAMILY | SSF49899 | Concanavalin A-like lectins/glucanases | 2 | 47 | 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:0007155 | cell adhesion | BP |
| GO:0005509 | calcium ion binding | MF |
| GO:0005576 | extracellular region | CC |
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.
