General information for g2993.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cathepsin B.
Parent gene
- The parent gene g2993 is located on chr_3: 21868580..21876208 (- 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 | g2993 | g2993.t6 | TTS | g2993.t6 | 21867629 | 21867629 |
| chr_3 | g2993 | g2993.t6 | isoform | g2993.t6 | 21867833 | 21868580 |
| chr_3 | g2993 | g2993.t6 | exon | g2993.t6.exon1 | 21867833 | 21867921 |
| chr_3 | g2993 | g2993.t6 | cds | g2993.t6.CDS1 | 21867833 | 21867921 |
| chr_3 | g2993 | g2993.t6 | exon | g2993.t6.exon2 | 21867986 | 21868479 |
| chr_3 | g2993 | g2993.t6 | cds | g2993.t6.CDS2 | 21867986 | 21868418 |
| chr_3 | g2993 | g2993.t6 | exon | g2993.t6.exon3 | 21868542 | 21868580 |
| chr_3 | g2993 | g2993.t6 | TSS | g2993.t6 | 21869220 | 21869220 |
Sequences
>g2993.t6 Gene=g2993 Length=622
CTTGTGGATTTGGTTGCAATGGTGGCTTTCCAGGATCAGCTTGGAGCTATTGGGTTAGAA
AAGGTATTGTTAGTGGTGGACCATACAATTCTTCAATTGGATGTCAGGTAAAAAATTCAT
TGTTAAATATTTTTTATTGTTTAAAATTTTATCCTTATTGCAGCCATATGAAATCGCTCC
TTGTGAACATCATGTCAATGGAACTCGTATGCCATGCTCTGGAGAAGGACATACACCAAA
ATGCATGAATAAATGCTCGAATCCCGCTTATAAAGTTGATTTCAAAACAGACAAACACTT
TGGCAAATCAAGCTATTCAGTAAAGCGTAATGAAGATCAAATTCGTTTGGAAATTTTCAA
AAATGGTCCAGTTGAAGGTGCATTCACAGTCTATGAAGATTTCGTTCAATATAAATCTGG
AGTTTATCAACATGTTACTGGTAAAGCACTTGGTGGCCATGCTATTAAAATTTTCGGATG
GGGAGTTGAAAATGGTGTCAAATACTGGTTGATTGCTAATAGCTGGAATTCAGATTGGGG
TGATAATGGAACCTTCAAAATATTGCGAGGAGAAGACCATGTCGGTATTGAGAGTGAGAT
TAGCGCTGGTTTGCCAAAGTAA
>g2993.t6 Gene=g2993 Length=173
MSGKKFIVKYFLLFKILSLLQPYEIAPCEHHVNGTRMPCSGEGHTPKCMNKCSNPAYKVD
FKTDKHFGKSSYSVKRNEDQIRLEIFKNGPVEGAFTVYEDFVQYKSGVYQHVTGKALGGH
AIKIFGWGVENGVKYWLIANSWNSDWGDNGTFKILRGEDHVGIESEISAGLPK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g2993.t6 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 14 | 173 | 1.9E-65 |
| 2 | g2993.t6 | PANTHER | PTHR12411:SF737 | CATHEPSIN B | 21 | 170 | 3.1E-49 |
| 3 | g2993.t6 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 21 | 170 | 3.1E-49 |
| 1 | g2993.t6 | Pfam | PF00112 | Papain family cysteine protease | 46 | 170 | 1.6E-32 |
| 5 | g2993.t6 | SMART | SM00645 | pept_c1 | 4 | 171 | 3.0E-16 |
| 4 | g2993.t6 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 20 | 172 | 1.12E-51 |
| 6 | g2993.t6 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 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:0008234 | cysteine-type peptidase 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.
