General information for g11948.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11948 is located on chr_1: 19584519..19584872 (+ 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_1 | g11948 | g11948.t1 | isoform | g11948.t1 | 19584519 | 19584872 |
| chr_1 | g11948 | g11948.t1 | exon | g11948.t1.exon1 | 19584519 | 19584728 |
| chr_1 | g11948 | g11948.t1 | cds | g11948.t1.CDS1 | 19584519 | 19584728 |
| chr_1 | g11948 | g11948.t1 | exon | g11948.t1.exon2 | 19584777 | 19584872 |
| chr_1 | g11948 | g11948.t1 | cds | g11948.t1.CDS2 | 19584777 | 19584872 |
| chr_1 | g11948 | g11948.t1 | TTS | g11948.t1 | 19584920 | 19584920 |
| chr_1 | g11948 | g11948.t1 | TSS | g11948.t1 | NA | NA |
Sequences
>g11948.t1 Gene=g11948 Length=306
ATGTTTCGTTTATTGATTGTTTCAACATTAATTGCCTGCGCATTGTCTGCAGTAGTTCCT
GATGCCACAGAAACTGAAGAATTTCGTCAATGGAGTGGTCGCATTGTAGGTGGACAGACA
GCAGCTCCTGGCCAATTTCCCTATCAAACATCTATGAGAAGTGCAGCAAACGCTCATTTT
TGTGGTGGTTTTATTATTAATCATCGCACTGTTTCATGGGGAGTTCCTTGCGGTACTGCT
TCACCAGATATGTTTGCTCGTATCTCTGCTGTCGCTACATGGCTCGATGCTAACACTGTC
AATTAA
>g11948.t1 Gene=g11948 Length=101
MFRLLIVSTLIACALSAVVPDATETEEFRQWSGRIVGGQTAAPGQFPYQTSMRSAANAHF
CGGFIINHRTVSWGVPCGTASPDMFARISAVATWLDANTVN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11948.t1 | Gene3D | G3DSA:2.40.10.10 | - | 35 | 72 | 4.9E-11 |
| 2 | g11948.t1 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 10 | 71 | 1.8E-12 |
| 3 | g11948.t1 | PANTHER | PTHR24250:SF50 | CHYMOTRYPSIN-LIKE-RELATED | 10 | 71 | 1.8E-12 |
| 1 | g11948.t1 | Pfam | PF00089 | Trypsin | 35 | 71 | 1.0E-6 |
| 9 | g11948.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 10 | g11948.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 11 | g11948.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 12 | g11948.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 8 | g11948.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 101 | - |
| 4 | g11948.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 3 | 71 | 4.52E-13 |
| 6 | g11948.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 16 | - |
| 13 | g11948.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 5 | g11948.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 22 | - |
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