Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cysteine proteinase ACP1.

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_2 g4838 g4838.t2 isoform g4838.t2 5198429 5199583
chr_2 g4838 g4838.t2 exon g4838.t2.exon1 5198429 5199045
chr_2 g4838 g4838.t2 cds g4838.t2.CDS1 5198429 5199045
chr_2 g4838 g4838.t2 exon g4838.t2.exon2 5199103 5199583
chr_2 g4838 g4838.t2 cds g4838.t2.CDS2 5199103 5199583
chr_2 g4838 g4838.t2 TSS g4838.t2 NA NA
chr_2 g4838 g4838.t2 TTS g4838.t2 NA NA

Sequences

>g4838.t2 Gene=g4838 Length=1098
ATGAAAATTTTTATAATTGTTTTCTTCATCTTAATCAACAGTAGTATTACAATTCGCATC
CATTTTTCATTTGAGCAATGGGAAGCTAAATTTTACAAGAATTTAGATGCATCACGAAGA
ACTTTCTATCGTCAAAATTTCGAATCAAATTTGCAAGATATAAATAGCCATAACAGCAAG
GAACATTTTTCATATAAAAAAGGCCTGAATGAATATTCACACTTGCCACGTGATCAATTT
ATTAAAACTCGTTGTAAAACTACTGTACCAAATGATATTTTAAGCTTCATTGATAATGAA
GTTGAAATGTCACCTCAAATAGTTCAAGAAGATAGAAATGGTTTGACAAAAAGTGATCAT
CAATCAATTCAATTTGATATGGCACCTTTAAGCTACCCCTTTTACTCGTTTACTTCTAAT
AATGTACCAGCAGCAGTTGATTGGAGTGCATTAATGCAACGGGTACAAAATCAAGCATCT
TGTGCATGTTGGGCTTTTTCAGCAATGGGTTTAATCGAAGGAATTTTAAGAATCAGAAAT
AGAACTTTGCCAGATTATACATTTTTTTCACCACAATTTTTAATCGATTGTGATATTAAC
GAATCAGGCTGCGAAGGTGGATGGCCTGTGACAGCTTTACGTTTTTTGAAGTCTTCAGCT
AATGGAAATGTCGCACCTAAAACTGCAGACTATCCATATCAATCTAGACGCAGAACTTGC
AATCGTAATATCGCAATGACACAATTGAATATAACGAAAGTTAGTGAGAAATATATCAAT
GGAAATGAATCTGCTTTACAAGTTCAAGTTGCAAATTATGGTCCAACAATTGTCAGCATG
TACTCAACAAATAATTTGGCTTCTTATAAAAGTGGAGTGTTTTCTGATAATAATTGCCCT
ACTGGTCCAGATGTTTGCAGTATGGTCAATCATGCAGTTATCGTTGTCGGTTATGGAACT
GATCTTGTATTAGGTGACTATTGGAAGGTTAAAAACAGCTGGGGCACAACTTGGGGTGAA
AATAATGGCTACTTTAGAATTGCTAGAAATAGTGGCAATATGTGCAACATTGCTTGCTGG
GCTATAAATGCTTGGTAA

>g4838.t2 Gene=g4838 Length=365
MKIFIIVFFILINSSITIRIHFSFEQWEAKFYKNLDASRRTFYRQNFESNLQDINSHNSK
EHFSYKKGLNEYSHLPRDQFIKTRCKTTVPNDILSFIDNEVEMSPQIVQEDRNGLTKSDH
QSIQFDMAPLSYPFYSFTSNNVPAAVDWSALMQRVQNQASCACWAFSAMGLIEGILRIRN
RTLPDYTFFSPQFLIDCDINESGCEGGWPVTALRFLKSSANGNVAPKTADYPYQSRRRTC
NRNIAMTQLNITKVSEKYINGNESALQVQVANYGPTIVSMYSTNNLASYKSGVFSDNNCP
TGPDVCSMVNHAVIVVGYGTDLVLGDYWKVKNSWGTTWGENNGYFRIARNSGNMCNIACW
AINAW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g4838.t2 CDD cd02248 Peptidase_C1A 143 358 4.40748E-68
10 g4838.t2 Gene3D G3DSA:3.90.70.10 Cysteine proteinases 17 363 3.1E-69
3 g4838.t2 PANTHER PTHR12411 CYSTEINE PROTEASE FAMILY C1-RELATED 20 359 2.4E-52
4 g4838.t2 PANTHER PTHR12411:SF791 CYSTEINE PROTEASE-LIKE PROTEIN-RELATED 20 359 2.4E-52
6 g4838.t2 PRINTS PR00705 Papain cysteine protease (C1) family signature 157 172 3.1E-5
7 g4838.t2 PRINTS PR00705 Papain cysteine protease (C1) family signature 311 321 3.1E-5
5 g4838.t2 PRINTS PR00705 Papain cysteine protease (C1) family signature 327 333 3.1E-5
1 g4838.t2 Pfam PF08246 Cathepsin propeptide inhibitor domain (I29) 24 80 1.7E-5
2 g4838.t2 Pfam PF00112 Papain family cysteine protease 142 358 1.5E-48
12 g4838.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
13 g4838.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
14 g4838.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 12 -
15 g4838.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 17 -
11 g4838.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 365 -
18 g4838.t2 SMART SM00848 Inhibitor_I29_2 24 80 1.3E-6
17 g4838.t2 SMART SM00645 pept_c1 142 365 2.2E-47
8 g4838.t2 SUPERFAMILY SSF54001 Cysteine proteinases 21 362 1.72E-68
9 g4838.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 17 -

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