Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cathepsin B.

Parent gene

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.t17 TTS g2993.t17 21867629 21867629
chr_3 g2993 g2993.t17 isoform g2993.t17 21867833 21869132
chr_3 g2993 g2993.t17 exon g2993.t17.exon1 21867833 21868694
chr_3 g2993 g2993.t17 cds g2993.t17.CDS1 21867912 21868418
chr_3 g2993 g2993.t17 exon g2993.t17.exon2 21868752 21869132
chr_3 g2993 g2993.t17 TSS g2993.t17 21869220 21869220

Sequences

>g2993.t17 Gene=g2993 Length=1243
ATGAAATATTTCATATTATTTGCTGCATTGACAGCAGTTTGCTTTGGAGCTGACATTTTT
TCTGATGAAGTAAAACAATTTTTTCGTTTCTACGTCTTAATTTGATTATCACTAATTATC
AATATTTCTAATTAAAACAGTTCATCAATGAAATTAATAAAAAAGCAACAACATGGAAGG
CTGGCCATAATTTTCATCCAGATACTAATTTGAAATATATCAAGAATTTACTTGGTGTTC
ATTCCGATTCTAAGCATTTTAAACTACCTGAGTTATTGCATGACTCACGGGACATAAAAG
ATTTACCTGAAAATTTTGATGCTCGTGAACAATGGCCTGATTGTCCAACATTGAGAGAAA
TAAGAGATCAAGGAAGTTGTGGATCTTGTTGGGCTTTTGGCGCTGTTGAGGCAATGAGTG
ACAGAGTATGCATTCATAGCAACGCAACTGAACATTTCCACTTTTCTGCTGAACATTTGG
TTTCTTGCTGTCACACTTGTGGATTTGGTTGCAATGGTGGCTTTCCAGGATCAGGTTGTT
TGACAATTTTAAAATAAATAAATTTCAATTTATTTATTATATCTAATTTTTTTTAGCTTG
GAGCTATTGGGTTAGAAAAGGTATTGTTAGTGGTGGACCATACAATTCTTCAATTGGATG
TCAGGTAAAAAATTCATTGTTAAATATTTTTTATTGTTTAAAATTTTATCCTTATTGCAG
CCATATGAAATCGCTCCTTGTGAACATCATGTCAATGGAACTCGTATGCCATGCTCTGGA
GAAGGACATACACCAAAATGCATGAATAAATGCTCGAATCCCGCTTATAAAGTTGATTTC
AAAACAGACAAACACTTTGGCAAATCAAGCTATTCAGTAAAGCGTAATGAAGATCAAATT
CGTTTGGAAATTTTCAAAAATGGTCCAGTTGAAGGTGCATTCACAGTCTATGAAGATTTC
GTTCAATATAAATCTGGAGTTTATCAACATGTTACTGGTAAAGCACTTGGTGGCCATGCT
ATTAAAATTTTCGGATGGGGAGTTGAAAATGGTGTCAAATACTGGTTGATTGCTAATAGC
TGGAATTCAGGTATGTTTATTGAATTTCTGCCTAAATATAAACTAGAAGATTTATTTTTT
TTAAAAAAAAATAGATTGGGGTGATAATGGAACCTTCAAAATATTGCGAGGAGAAGACCA
TGTCGGTATTGAGAGTGAGATTAGCGCTGGTTTGCCAAAGTAA

>g2993.t17 Gene=g2993 Length=168
MSGKKFIVKYFLLFKILSLLQPYEIAPCEHHVNGTRMPCSGEGHTPKCMNKCSNPAYKVD
FKTDKHFGKSSYSVKRNEDQIRLEIFKNGPVEGAFTVYEDFVQYKSGVYQHVTGKALGGH
AIKIFGWGVENGVKYWLIANSWNSGMFIEFLPKYKLEDLFFLKKNRLG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2993.t17 Gene3D G3DSA:3.90.70.10 Cysteine proteinases 14 146 1.4E-50
2 g2993.t17 PANTHER PTHR12411:SF737 CATHEPSIN B 21 143 1.7E-36
3 g2993.t17 PANTHER PTHR12411 CYSTEINE PROTEASE FAMILY C1-RELATED 21 143 1.7E-36
1 g2993.t17 Pfam PF00112 Papain family cysteine protease 46 144 1.8E-23
5 g2993.t17 SMART SM00645 pept_c1 4 156 3.8E-7
4 g2993.t17 SUPERFAMILY SSF54001 Cysteine proteinases 20 144 2.2E-39
6 g2993.t17 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. There were no conditions that were differentially expressed