Gene loci information

Transcript annotation

  • This transcript has been annotated as 5-oxoprolinase.

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 g5617 g5617.t1 TTS g5617.t1 10645446 10645446
chr_2 g5617 g5617.t1 isoform g5617.t1 10645534 10649935
chr_2 g5617 g5617.t1 exon g5617.t1.exon1 10645534 10645673
chr_2 g5617 g5617.t1 cds g5617.t1.CDS1 10645534 10645673
chr_2 g5617 g5617.t1 exon g5617.t1.exon2 10645727 10648323
chr_2 g5617 g5617.t1 cds g5617.t1.CDS2 10645727 10648323
chr_2 g5617 g5617.t1 exon g5617.t1.exon3 10648386 10648446
chr_2 g5617 g5617.t1 cds g5617.t1.CDS3 10648386 10648446
chr_2 g5617 g5617.t1 exon g5617.t1.exon4 10648502 10648620
chr_2 g5617 g5617.t1 cds g5617.t1.CDS4 10648502 10648620
chr_2 g5617 g5617.t1 exon g5617.t1.exon5 10648695 10648761
chr_2 g5617 g5617.t1 cds g5617.t1.CDS5 10648695 10648761
chr_2 g5617 g5617.t1 exon g5617.t1.exon6 10649050 10649935
chr_2 g5617 g5617.t1 cds g5617.t1.CDS6 10649050 10649935
chr_2 g5617 g5617.t1 TSS g5617.t1 10649982 10649982

Sequences

>g5617.t1 Gene=g5617 Length=3870
ATGAATAAATTTAATTTTTTCATTGATCGTGGAGGTACATTTACCGATTGCATTTGCATC
ACAGCAAATCAATCAGTTAAAACAATGAAACTTTTATCAGAAGACCCTGAAAATTACAAA
GATGCTCCAACTGAAATAATTAAAAGACTTTTAATTGAAGAACTTGGAAAAGATAAGGTC
ATTAATGAGAACGGTTTGATAAATACGTCTCATATTGGTTGTGTGCGGATGGGTACTACT
GTTGCGACAAATGCTTTATTAGAGAGAAAAGGAGAAAAAATTGTATTAGTCGTCAATAAA
GGATTGAAAGATATTTTGCAAATTGGTAATCAGGCACGTCCAAAAATTTTTGATCTCAAC
ATTAGAAAACCTTCGAATCTATACGAGAAAGTCATTGAAGTTGATTGCCGAATTGTTCCA
GAAAGAAATGATTGTGAACTTGGTGAGATTTCATCATCATGGAGAAAAGTTTCTGGAATA
TCCAATTCTACGTTTCTTGTTCAAAAAGAATTGAATGTTGATGAAGTTAGAGGTCAATTG
CAAAATGTCTTTGATTTAGGAATCACATCAGTTGCTGTTTGTTTAGCACACTCGTATGCA
TGTCCTGAACAAGAATTAATAATTGGAGACATCGCTAAAAGCGTTGGTTTTACTACAATT
ACGCTCAGTCATCAGGCAATGCCTATGATTCGACTTGTTAATAGATCATTTACTTCTTGT
GCTGAAGCCTATTTGGAGCCACATGTTCACCGTTATTTAAAATCATTTAAAGCTGGATTC
GAAAAAAATCTTGAAGGAGTGGAAGTTCTTTTTATGCAGAGTGATGGTGGTTTAACAAAT
ATTAATAGATTTAGAGGAGCAAAGGCTATTTTGTCAGGTCCCGCAGGAGGTGTCATTGGC
TACAGTTTGACAGGATCGAGAGATACAAATTTGCCTCTAATTGGTTTTGATATGGGCGGC
ACATCGACTGATGTAAGCAGATTTGATGGAAATTATGAACATGTTATTGAATCAACAACT
GCTGGAGTGACTATTCAAGCACCTCAACTTGATATAAATACAGTAGCTGCAGGTGGAGGA
AGTCAGTTATTCTTTAGATCAGGAATGTATGTCGTGGGACCTGAATCTGCAGGAGCACAT
CCAGGACCAGCTTGCTATAAAAAAGGCGGACCACTTACTATTACTGATGCAAATTTAGTT
CTCGGTAGACTGCTTCCTGAATATTTTCCCAAAATCTTTGGTCCGCATGAAGATGAACCA
CTCGATGTTGAAATTGCAATGAATAAATTTTCTGAAATTACCAAACTCATCAATGATTAT
AACAAAACTGAAGAGCTTTCAATTCAAGATGTAGCAATGGGATTTATTCGTGTTGCTAAT
GAGTCCATGTGTCGTCCAATAAGAGCTTTGACTCAGTCACGTGGTTTTGACACATCGAAG
CATGCACTTGCTGTGTTTGGTGGAGCTGGAGGACAACATGCTTGTTCAATTGCAAAAGAA
CTTGGCATGAAAACAGTTTTAATTCATAAATATGCTGGAATATTATCAGCTTACGGTATG
GCTTATGCTGATGTTGTTTATGAAAGTCAAGAGCCTTATGGATTTGCTTTTGAAACTAAA
AATATTGAAGCGATAAAAAATCTATTGGATAAATTATCATCTCAATGCATTACACAATTA
AAAAATCAGGGATTTTCAGAGGAAAATATTCAATGTGAACCATATTTACATTTACGATAC
AATTCTACAGATTGCGCTCTTATGATTTCACCAGACAAGGTTTCAAAACATGAACTGAGT
GTTCCAAATTATGGTGATTTTATATCAGCTTTTCTCACACGCTATCAAAAAGAATTTGGA
TTTATTTTAGAAAATCGTTCAATTATTGTAGATGACGTAAGAGTTAGAGGACTAGGGAAA
ACTAAAATTCCTGATGAACCATTAGTTGAGAAAGCAAAAAGTAAAAAGCCCAATCCAGAA
AAAATGATCAAAGTGTTTTTCGATAATAAATGGATGGAAACTAAATTATTTATTAGAGAG
AAATTGATGGCAAACCATGAAATATTAGGACCTGCAATTATTATTGATCGTCTTTCAACG
ATTGTCATTGAACCAAATTCTTCTGCATTTATCACAGAAAGAGGTGATATTATAATAACT
ATTGGAGAAAATTCTCTACAAAAAGTTGTTGGTGTTGAATTAGATCCTATTCAACTATCA
ATTTTCAGTCACCGTTTTATGTCTATTGCGGAACAATGTGGTCGAGTACTTCAAAGAACA
TCAATTTCAACAAATATAAAAGAAAGATTAGATTTCAGTTGTGCTCTTTTCGCTCAAGAT
GGAGGTCTTGTTTCTAATGCACCACATATTCCTGTTCATCTTGGTGCAATGCAAGAAACT
GTTCGTTATCAAATAAAAACTATAGGAAATACATTAAAAGATGGAGATGTCATTCTTTCA
AATCATCCGCATGCTGGCGGCTCACATTTACCTGATTTGACAGTTATTACACCAGTCTTT
TATGCAAGCAAGAAAGAGCCAGTTTTCTTTGTTGCTAGTCGAGGCCATCATGCTGATATT
GGGGGAATTACTAGTGGTTCAATGCCACCTCATTCAAAATCATTGTCTGAAGAGGGAGCA
GCTTTTAAATCATTTTTACTTGTTGATGGTGGTGTATTTAATGAAAAAGGAATAACTGAT
GCTTTAATAAGTGCTGGAACTAGAAATTTAAGTGATAATATTTCTGATTTGAAAGCACAA
ATTGCAGCTAATCATAAAGGCATAATACTAGTGCGTGAACTCATTGACATATATGGAATT
GATGTTGTTCAGGCATTTATGAAATATATACAAGAAAATGCAGCAGAATGTGTGAGAGAT
ATGCTTAAAGAAATAGCTCTAGACACAAAAAAGAGAACTGGCGCGAGTGTTTTAAAAGCA
ACTGAATTTATGGATGATGGTACACCGATTTCTCTAGAAATTTCAATTGATGAACAAAAT
GGAACGGCTGTTTTTGATTTTTCTGAAACGGGATATGAAGTTTATGGTAATTGTAATACA
CCTCGTGCAATTGTAATGAGTGCCATCATATATTGTCTTCGCTGTATGGTAGGCTATGAT
ATACCACTAAATCAAGGCTGTCTTAATCCCATTGAAGTAATTATCCCAGAAAATTGCATT
CTAAATCCATCCAAAAATGCTGCAGTTGTGGGCGGGAATGTTTTAACGTCACAGAGAATT
GTTGATGTGATTTTGAAAGCTTTCAAAGTGTGTGCAGCTAGTTGCGGTTGTATGAATAAT
GTGACATTTGGTGATGATAAATTTGGTTATTATGAAACCGTTGGTGGAGGTTCTGGAGCT
GGACCTAATTGGCATGGAACATCTGGATTGCATACACATATGACAAACACAAGAATCACA
GATTTAGAAATTTTAGAACAACGATATCCGATAATTTTGAAAACTTTTTGTTTGAGAGAT
GATAACTCTGGTGGAAATGGTTTGTTTAAAGGTGGTGAAGGTGTTAAACGTGAACTTTTA
TTTAGAAAACCAGTCAAATTATCAGTTCTAACAGAGAGAAGAGTTGTCCAAAATTATGGA
ATGGAAGGTGGAAAACCAGGAAAAGTTGGTTTAAATTTGTTAAAGAGAAATGATGGACTT
ATATTGAATTTGGGATCTAAGACTGCAATTGATGTAATTGCAGGAGATATTTTTTCGATG
CTAACTCCTGGTGGTGGAGGCTATGGCAAAAAAGTAGAGAAACGAAGACGTTCATATGAT
AATAATAATGAAGAAGAAGAAGAACGAGCAAAAACATTTTATGAAAAAGGAAGTCTATTT
GCTTATAGAATGCTTCAAGAGTCTGTATAA

>g5617.t1 Gene=g5617 Length=1289
MNKFNFFIDRGGTFTDCICITANQSVKTMKLLSEDPENYKDAPTEIIKRLLIEELGKDKV
INENGLINTSHIGCVRMGTTVATNALLERKGEKIVLVVNKGLKDILQIGNQARPKIFDLN
IRKPSNLYEKVIEVDCRIVPERNDCELGEISSSWRKVSGISNSTFLVQKELNVDEVRGQL
QNVFDLGITSVAVCLAHSYACPEQELIIGDIAKSVGFTTITLSHQAMPMIRLVNRSFTSC
AEAYLEPHVHRYLKSFKAGFEKNLEGVEVLFMQSDGGLTNINRFRGAKAILSGPAGGVIG
YSLTGSRDTNLPLIGFDMGGTSTDVSRFDGNYEHVIESTTAGVTIQAPQLDINTVAAGGG
SQLFFRSGMYVVGPESAGAHPGPACYKKGGPLTITDANLVLGRLLPEYFPKIFGPHEDEP
LDVEIAMNKFSEITKLINDYNKTEELSIQDVAMGFIRVANESMCRPIRALTQSRGFDTSK
HALAVFGGAGGQHACSIAKELGMKTVLIHKYAGILSAYGMAYADVVYESQEPYGFAFETK
NIEAIKNLLDKLSSQCITQLKNQGFSEENIQCEPYLHLRYNSTDCALMISPDKVSKHELS
VPNYGDFISAFLTRYQKEFGFILENRSIIVDDVRVRGLGKTKIPDEPLVEKAKSKKPNPE
KMIKVFFDNKWMETKLFIREKLMANHEILGPAIIIDRLSTIVIEPNSSAFITERGDIIIT
IGENSLQKVVGVELDPIQLSIFSHRFMSIAEQCGRVLQRTSISTNIKERLDFSCALFAQD
GGLVSNAPHIPVHLGAMQETVRYQIKTIGNTLKDGDVILSNHPHAGGSHLPDLTVITPVF
YASKKEPVFFVASRGHHADIGGITSGSMPPHSKSLSEEGAAFKSFLLVDGGVFNEKGITD
ALISAGTRNLSDNISDLKAQIAANHKGIILVRELIDIYGIDVVQAFMKYIQENAAECVRD
MLKEIALDTKKRTGASVLKATEFMDDGTPISLEISIDEQNGTAVFDFSETGYEVYGNCNT
PRAIVMSAIIYCLRCMVGYDIPLNQGCLNPIEVIIPENCILNPSKNAAVVGGNVLTSQRI
VDVILKAFKVCAASCGCMNNVTFGDDKFGYYETVGGGSGAGPNWHGTSGLHTHMTNTRIT
DLEILEQRYPIILKTFCLRDDNSGGNGLFKGGEGVKRELLFRKPVKLSVLTERRVVQNYG
MEGGKPGKVGLNLLKRNDGLILNLGSKTAIDVIAGDIFSMLTPGGGGYGKKVEKRRRSYD
NNNEEEEERAKTFYEKGSLFAYRMLQESV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g5617.t1 Coils Coil Coil 1249 1269 -
4 g5617.t1 PANTHER PTHR11365 5-OXOPROLINASE RELATED 2 1251 0.0
5 g5617.t1 PANTHER PTHR11365:SF2 5-OXOPROLINASE 2 1251 0.0
1 g5617.t1 Pfam PF05378 Hydantoinase/oxoprolinase N-terminal region 6 215 5.3E-56
3 g5617.t1 Pfam PF01968 Hydantoinase/oxoprolinase 236 528 4.4E-107
2 g5617.t1 Pfam PF02538 Hydantoinase B/oxoprolinase 735 1250 2.5E-203

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5617/g5617.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5617.t1.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016787 hydrolase activity MF
GO:0003824 catalytic activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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.

Raw TPM values