General information for g1464.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Brachyurin.
Parent gene
- The parent gene g1464 is located on chr_3: 11059022..11059664 (- 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 | g1464 | g1464.t12 | TTS | g1464.t12 | 11058577 | 11058577 |
| chr_3 | g1464 | g1464.t12 | isoform | g1464.t12 | 11058703 | 11059664 |
| chr_3 | g1464 | g1464.t12 | exon | g1464.t12.exon1 | 11058703 | 11058851 |
| chr_3 | g1464 | g1464.t12 | cds | g1464.t12.CDS1 | 11058719 | 11058851 |
| chr_3 | g1464 | g1464.t12 | exon | g1464.t12.exon2 | 11058992 | 11059274 |
| chr_3 | g1464 | g1464.t12 | cds | g1464.t12.CDS2 | 11058992 | 11059274 |
| chr_3 | g1464 | g1464.t12 | exon | g1464.t12.exon3 | 11059334 | 11059664 |
| chr_3 | g1464 | g1464.t12 | cds | g1464.t12.CDS3 | 11059334 | 11059664 |
| chr_3 | g1464 | g1464.t12 | TSS | g1464.t12 | 11059694 | 11059694 |
Sequences
>g1464.t12 Gene=g1464 Length=763
ATGAAGTTCTTTATTTTAATAGTTTCCTTATTTGCTGCAGTGTCAGCTTTTCCCAATAGA
GAAGAAAGGATCGTTGGTGGCTCAGTCGCTAAACCTAATTCGCATCCTTTTGTTGTACTT
CTTGTTGTCAATTTACCAAATCATAATGATGCAATGTGCGGAGGCTCAATAATCAGCAAA
ACAGTCATTTTAACTGCTGCACATTGCCTGCAAGGTTCAATTTCAACAGAAGTTGCAGCT
GGTGTTCACGACATCACACATGAAGAACCAACACAACAACATATGACTGTTATGCCTCCT
CAATATCGCGTTCATAGCCAATTCAATCCAAAAAATTTTAATAATGATGTGGCTACTTTA
ATTTTACCCCATCAATTGACTCTCAATAAGTATGTCGCAACAATAACATTGGCAAAAGCA
AATATAGGATTACTTGAAGGTGTAAATGCGATGTCGTTGGGTTGGGGAGACACAGTCAAT
GGTGGACCTCATTCGAATGTCTTAAAAGAGGTTACGAATAAAATTATCAAAAATTCTGAA
TGTGTTCCACATTATACAGGTGGAATTGTTAATGCTGCTGCTATGTGTGTTGCTTCGACC
AATAGAAATGGAATGTCCTTTGGTAATTGCCCAAGGCAGCAATCTTATACAAGTTGGTAT
TGCAAGCTTCATTCCAACTCGTCCGAATACTTGTGGTGTAGTTCCTGCTGGTTACGCTCG
AGTCAGTTCTTTTATTGCATGGATTGAAAGTCATATGAAATAA
>g1464.t12 Gene=g1464 Length=248
MKFFILIVSLFAAVSAFPNREERIVGGSVAKPNSHPFVVLLVVNLPNHNDAMCGGSIISK
TVILTAAHCLQGSISTEVAAGVHDITHEEPTQQHMTVMPPQYRVHSQFNPKNFNNDVATL
ILPHQLTLNKYVATITLAKANIGLLEGVNAMSLGWGDTVNGGPHSNVLKEVTNKIIKNSE
CVPHYTGGIVNAAAMCVASTNRNGMSFGNCPRQQSYTSWYCKLHSNSSEYLWCSSCWLRS
SQFFYCMD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g1464.t12 | CDD | cd00190 | Tryp_SPc | 24 | 199 | 9.44133E-44 |
| 7 | g1464.t12 | Gene3D | G3DSA:2.40.10.10 | - | 25 | 203 | 6.3E-40 |
| 6 | g1464.t12 | Gene3D | G3DSA:2.40.10.10 | - | 36 | 134 | 6.3E-40 |
| 2 | g1464.t12 | PANTHER | PTHR24260 | - | 3 | 202 | 4.2E-39 |
| 3 | g1464.t12 | PANTHER | PTHR24260:SF90 | AT07769P-RELATED | 3 | 202 | 4.2E-39 |
| 1 | g1464.t12 | Pfam | PF00089 | Trypsin | 24 | 200 | 1.0E-30 |
| 9 | g1464.t12 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 10 | g1464.t12 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 11 | g1464.t12 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 11 | - |
| 12 | g1464.t12 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 16 | - |
| 8 | g1464.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 248 | - |
| 14 | g1464.t12 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 64 | 69 | - |
| 16 | g1464.t12 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 24 | 248 | 18.415 |
| 15 | g1464.t12 | SMART | SM00020 | trypsin_2 | 23 | 220 | 9.9E-24 |
| 4 | g1464.t12 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 6 | 204 | 3.39E-43 |
| 5 | g1464.t12 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 16 | - |
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.
