General information for g6680.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Chymotrypsin BII.
Parent gene
- The parent gene g6680 is located on chr_2: 18055707..18056611 (- 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 | g6680 | g6680.t1 | TTS | g6680.t1 | 18055508 | 18055508 |
| chr_2 | g6680 | g6680.t1 | isoform | g6680.t1 | 18055707 | 18056611 |
| chr_2 | g6680 | g6680.t1 | exon | g6680.t1.exon1 | 18055707 | 18056056 |
| chr_2 | g6680 | g6680.t1 | cds | g6680.t1.CDS1 | 18055707 | 18056056 |
| chr_2 | g6680 | g6680.t1 | exon | g6680.t1.exon2 | 18056116 | 18056611 |
| chr_2 | g6680 | g6680.t1 | cds | g6680.t1.CDS2 | 18056116 | 18056611 |
| chr_2 | g6680 | g6680.t1 | TSS | g6680.t1 | 18056658 | 18056658 |
Sequences
>g6680.t1 Gene=g6680 Length=846
ATGAAAGTGATTTCAATTATTCTATTTGTAATATTTAATGATAGATTGTCATGTGCTTTA
TATCTTAATGAAGATATAAATTCGTATATAATAAACGGAATCGAAGCAATACCAAATTCT
TTTCCTTGGCAGTGTGGATTGATAGTATATTCTCAACCATTTCATGATTTGACTGTATCT
TCGACATGTGGTGGAAGTATTTTATCCAGAAATTTTGTATTAACATCAGCATTTTGCCTT
CAAGGATCAGAATATACACTTGTAATTGCTGGTGCTCATAGAATTTTTGAAATTGAAGAA
ACACAACAACGATTTCATGTTGAAAAAAATTCTTATATTATTCATCCTGAATTTATCCGC
GAGTTTTTACATAATGATATTGCATTGATGAAACTTGGAAAATCACTAATTTTTAATAAT
TTTGTGCAAGCAATCAAACTGCCATCAGAAAAGTTTTCAACTTACAATTTTATAGGCGAA
AAAACACAAATTGCAGGATGGGGAAGATTCAGTGATTGGACAGGCGATGCTTCTGAAGTT
TTAAGAGTCACCAGAAATCATGTTGTTGATAATGAAAAATGTCATGAAAGATTTGGAATA
TTAACTTCAAATAGAACTATGTGCTTAGAAACTTTACAATTTCAAAGTTCATCATGTCGA
GGTGATCAAGGCTCACCAGTTGTTTGGGAAAATGAAAATTCAGATAAAGTAATAATTGGT
GTTGTTAGTTTCGGTATTTGGATTTTTAATTTTGGATGTGATCCCACTGGCAATTTGTTT
ATTCCAACAGTTAATACTAACATTAATTATTTCATTCCTTGGATTCGCCTTTACATAAAT
AATTAA
>g6680.t1 Gene=g6680 Length=281
MKVISIILFVIFNDRLSCALYLNEDINSYIINGIEAIPNSFPWQCGLIVYSQPFHDLTVS
STCGGSILSRNFVLTSAFCLQGSEYTLVIAGAHRIFEIEETQQRFHVEKNSYIIHPEFIR
EFLHNDIALMKLGKSLIFNNFVQAIKLPSEKFSTYNFIGEKTQIAGWGRFSDWTGDASEV
LRVTRNHVVDNEKCHERFGILTSNRTMCLETLQFQSSSCRGDQGSPVVWENENSDKVIIG
VVSFGIWIFNFGCDPTGNLFIPTVNTNINYFIPWIRLYINN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g6680.t1 | CDD | cd00190 | Tryp_SPc | 30 | 276 | 1.17465E-55 |
| 9 | g6680.t1 | Gene3D | G3DSA:2.40.10.10 | - | 22 | 279 | 9.9E-52 |
| 2 | g6680.t1 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 25 | 277 | 5.5E-55 |
| 3 | g6680.t1 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 25 | 277 | 5.5E-55 |
| 5 | g6680.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 64 | 79 | 3.7E-10 |
| 6 | g6680.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 122 | 136 | 3.7E-10 |
| 4 | g6680.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 216 | 228 | 3.7E-10 |
| 1 | g6680.t1 | Pfam | PF00089 | Trypsin | 30 | 275 | 7.8E-43 |
| 11 | g6680.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 12 | g6680.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 13 | g6680.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 11 | - |
| 14 | g6680.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 19 | - |
| 10 | g6680.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 281 | - |
| 17 | g6680.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 30 | 280 | 24.971 |
| 16 | g6680.t1 | SMART | SM00020 | trypsin_2 | 29 | 275 | 5.6E-44 |
| 7 | g6680.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 17 | 280 | 2.21E-60 |
| 8 | g6680.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
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