General information for g8290.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Brachyurin.
Parent gene
- The parent gene g8290 is located on chr_2: 29569529..29570578 (- 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_2 | g8290 | g8290.t2 | TTS | g8290.t2 | 29569501 | 29569501 |
| chr_2 | g8290 | g8290.t2 | isoform | g8290.t2 | 29569529 | 29570578 |
| chr_2 | g8290 | g8290.t2 | exon | g8290.t2.exon1 | 29569529 | 29569692 |
| chr_2 | g8290 | g8290.t2 | cds | g8290.t2.CDS1 | 29569689 | 29569692 |
| chr_2 | g8290 | g8290.t2 | exon | g8290.t2.exon2 | 29569737 | 29569824 |
| chr_2 | g8290 | g8290.t2 | cds | g8290.t2.CDS2 | 29569737 | 29569824 |
| chr_2 | g8290 | g8290.t2 | exon | g8290.t2.exon3 | 29569877 | 29569950 |
| chr_2 | g8290 | g8290.t2 | cds | g8290.t2.CDS3 | 29569877 | 29569950 |
| chr_2 | g8290 | g8290.t2 | exon | g8290.t2.exon4 | 29570008 | 29570410 |
| chr_2 | g8290 | g8290.t2 | cds | g8290.t2.CDS4 | 29570008 | 29570410 |
| chr_2 | g8290 | g8290.t2 | exon | g8290.t2.exon5 | 29570470 | 29570578 |
| chr_2 | g8290 | g8290.t2 | cds | g8290.t2.CDS5 | 29570470 | 29570578 |
| chr_2 | g8290 | g8290.t2 | TSS | g8290.t2 | 29570618 | 29570618 |
Sequences
>g8290.t2 Gene=g8290 Length=838
ATGTCTCTTAAATTTTTATTATTTTTTTTGACCTTTTCTATTTGTTCCTATGCTTTAAAA
TTTGATACAATTTCTCAATCATCATTAAAGTTTAATAGAAAGATTGCAGGTGGAACCAAA
GCAGAAAGAAATGAATTTCTTTATAAATGTGCTCTCTATATTACAAAAATAACAGAAGAA
TTAAATTTTTGTTCAGGATCAATAATATCAGATCGATTCGTAATTTCAGCAGCACACTGC
TTTTCGAACATTACTACTGGAGTTATATTTGCTGGTGTGCACAATTTAAAAGAAGAAGAA
GCACCTTACGATTATGATTTTGAAGTAACAGATGTAATTCTACACGAAGAATATGATGCA
TCAACATATTTAAATGACATTGCTTTAATTAACGTCACTGCATATCCTTTTGATTTTACC
AATTCAAAAAATTTTATTCAAAAAATTCAAATTGTTACTGAATTAATAAGCAATGATAAT
TTAGTAGGAATGATTGGTCGAATTGCAGGATGGGGACAAACGACAGATGAAAATCGTGAA
ATATCAAATGAACTTTTGTATATTGATGCTGAAATTATTGACTTGTATAATTGTAAAGTA
ATTTTTGGAAATAAAATTAGATCAACAAATCTTTGTCTTAAAAGTGATGATAGTCGATCA
ACATGTCAAGGTTTGTGATAGCGGTGGTGGACTTCAAGTGACTATTAATGGTGAAAATTT
CATCGTAGCTCTGGTTAGTTTTGGTGCAGAAGATGGTTGCGAAAAGAATTACCCGGTTGT
ATTTACTTTTTTACCACCATATTTCAAATGGATAAATTCAATTGTCAACAGAGATTAA
>g8290.t2 Gene=g8290 Length=225
MSLKFLLFFLTFSICSYALKFDTISQSSLKFNRKIAGGTKAERNEFLYKCALYITKITEE
LNFCSGSIISDRFVISAAHCFSNITTGVIFAGVHNLKEEEAPYDYDFEVTDVILHEEYDA
STYLNDIALINVTAYPFDFTNSKNFIQKIQIVTELISNDNLVGMIGRIAGWGQTTDENRE
ISNELLYIDAEIIDLYNCKVIFGNKIRSTNLCLKSDDSRSTCQGL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g8290.t2 | CDD | cd00190 | Tryp_SPc | 35 | 224 | 1.96808E-36 |
| 5 | g8290.t2 | Gene3D | G3DSA:2.40.10.10 | - | 27 | 225 | 1.9E-36 |
| 2 | g8290.t2 | PANTHER | PTHR24260 | - | 25 | 224 | 3.2E-34 |
| 1 | g8290.t2 | Pfam | PF00089 | Trypsin | 35 | 224 | 9.3E-26 |
| 7 | g8290.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 8 | g8290.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 9 | g8290.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 15 | - |
| 10 | g8290.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 6 | g8290.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 225 | - |
| 13 | g8290.t2 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 75 | 80 | - |
| 15 | g8290.t2 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 35 | 225 | 16.909 |
| 14 | g8290.t2 | SMART | SM00020 | trypsin_2 | 34 | 225 | 6.4E-10 |
| 3 | g8290.t2 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 9 | 224 | 1.31E-39 |
| 4 | g8290.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 12 | g8290.t2 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
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:0004252 | serine-type endopeptidase activity | MF |
| GO:0006508 | proteolysis | 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