Gene loci information

Transcript annotation

  • This transcript has been annotated as Origin recognition complex subunit 3.

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 g6161 g6161.t1 TSS g6161.t1 14657660 14657660
chr_2 g6161 g6161.t1 isoform g6161.t1 14657726 14659981
chr_2 g6161 g6161.t1 exon g6161.t1.exon1 14657726 14657752
chr_2 g6161 g6161.t1 cds g6161.t1.CDS1 14657726 14657752
chr_2 g6161 g6161.t1 exon g6161.t1.exon2 14657810 14657959
chr_2 g6161 g6161.t1 cds g6161.t1.CDS2 14657810 14657959
chr_2 g6161 g6161.t1 exon g6161.t1.exon3 14658021 14659828
chr_2 g6161 g6161.t1 cds g6161.t1.CDS3 14658021 14659828
chr_2 g6161 g6161.t1 exon g6161.t1.exon4 14659885 14659981
chr_2 g6161 g6161.t1 cds g6161.t1.CDS4 14659885 14659981
chr_2 g6161 g6161.t1 TTS g6161.t1 NA NA

Sequences

>g6161.t1 Gene=g6161 Length=2082
ATGGATTCAATTAATTCTGTAGCTAAGGGTGTATTTTTCTTCAAAAATGGCAAAAGCTTA
AAAGACTTGAATAAGAAGAAAAGAAAATCGGAAGAATTAGTAAATAAACAGAATAAAAAT
CAACATTGGTATATAACTTTCAAAGATGAATGGAAAATCATAGAACAGAAGGTTGAAAAA
ATTCAATCAGAGAGTTATGGAAAGACATTAAATAATTTATTAAAATACATTCAAGATGTC
AATTTAAATGATCCTAATCTTCAAACTGCTGTTCTTTTAACTGGAGTGAATCAGACAGAT
CATTTTAAACAATTCGACTCATTATCCACAAAAATTTACAATAACTGCTACTCGATTGTC
ACTATTCTCAAATCAAGAGATTGTCCTAATATAAAATCAGCTATCGAAACTCTTGTTCAT
GGTTTAATTTACAATACAAGTAAAAATAATGAAGACGATGAAAATGAGGATGAAAGCATT
AATGTCAAGTTGAAGAAAAAGCAGCTTACACTTTCTGTTCTCGAAGCCTGGTTCAATGGC
AACTACAAAACTTCAAAGAAGAAACCAAAGTTAGTGATCATGCTTGCTGATTTCGAACAG
TTCAATCCAGTCGTTATGCAAGAATTAATTGGAATTTTATGTGCTTATACATTTCGACTT
CCTTTGATTCTTATTTTGGGAATTGCAACAGCATTTAAAACGCTTCATAATGTTCTACCA
TTTCATATAACAAGTAAAATCACAGCAAATGTTTTTCAAGCTCAATCAGCTACATCAATG
CTAAATCAGATTCTCGATGAAATTATTTTAACTCATCAATGTCCGTTTTTCTTATCTGGA
AAATCTTTCAATGTGCTGGTTGACATATTCTTATTTTATGATTACTCGTTACACAGTTTT
ATTCAAGGATTTAAAATTTTCATGTTGGAGCAATTTATGACAAATAGTTTTAGCTCAATT
TATTCACCAGAAGGAAAGATGTATGATGGTGTTATCGATTCACTTACACATGAGGAATGT
GAAAACATTAGAAAAAGTTGCATGAGTTTTCGTAAATTTGTTGAAGAGCAAGAAGACCCA
CAAGTAAGGATAGATTTAATAAAGAACGATGATGAATTGAAAAAGTTGATAATTAAACAA
AAATTGAGGATCTATAGATATTTTTATAAATTCTTTATTTGCTTAAGAATGCTCTCAATC
TTAATTGAAGACTTGCCAAGAAACAATTTGGGAACATTACTAAGAGAACTCTATCCAGTA
TGTGCAAATGAAGAAATTATCAAAAACGAAGATTTCAAAGAGTGTTTCAAGTATCTTCGA
TTTACATCTAAGGATCAGTTCATAAATAAATTGGATAAAGTTATTAAAATTCTTGATATT
TCATTAACAGATAATACATTGAATAACTTAGCAAAATCTAAATTTATAAAGACTTTAGAA
AAATTGCAATCACATCGAGAAAAAATTTTTAATGCTGGAATGGCACCAGTAAAAGTCGAC
ACTCCGCAAAAATCTGTTGAAGTGACAGGAGAAAAAGCAATGAGCAGGTTACAAATGATG
GAAAAATTAAAGGAATCGGCTATGAATAATGCACCAAGAACAGTTATAGAATATGAAAAA
TGTCTCATTGAATGTCTTGATTATCTTCATAATGTGTTTGAAAAAAATTTGGTACCTTTC
AATAAAGGACCTGCATTAGTTGAACTTTTTATATTTAGTGATTATTCTTCTATTCGACGT
CAAATTGTCGGTGCACCTCGTGGAGCTATACATAATGCACTTTCAAATCCTCATCATTAT
CTTCAATGTAGCTGTTGTGAATTGAAAGACAATGAACAAATTTTACCATCAATGCCAGAT
ATATGTATCGCATATAAACTTCATCTCGAATGTAATAAATTCATCAATTTATACGATTGG
TTGCAAGCATTCTCTATGGTCGTTGATAATAATGAAGATGAAGAAAGTATTAAACCTGAA
GTTCAAGCAAGATTTACAAGAGCAACAGCTGAATTACAATTTCTTGGTTTGATTAAACAA
GCAAAGCAAAAGACTGATCATGTTATGAGACTAACTTGGTAG

>g6161.t1 Gene=g6161 Length=693
MDSINSVAKGVFFFKNGKSLKDLNKKKRKSEELVNKQNKNQHWYITFKDEWKIIEQKVEK
IQSESYGKTLNNLLKYIQDVNLNDPNLQTAVLLTGVNQTDHFKQFDSLSTKIYNNCYSIV
TILKSRDCPNIKSAIETLVHGLIYNTSKNNEDDENEDESINVKLKKKQLTLSVLEAWFNG
NYKTSKKKPKLVIMLADFEQFNPVVMQELIGILCAYTFRLPLILILGIATAFKTLHNVLP
FHITSKITANVFQAQSATSMLNQILDEIILTHQCPFFLSGKSFNVLVDIFLFYDYSLHSF
IQGFKIFMLEQFMTNSFSSIYSPEGKMYDGVIDSLTHEECENIRKSCMSFRKFVEEQEDP
QVRIDLIKNDDELKKLIIKQKLRIYRYFYKFFICLRMLSILIEDLPRNNLGTLLRELYPV
CANEEIIKNEDFKECFKYLRFTSKDQFINKLDKVIKILDISLTDNTLNNLAKSKFIKTLE
KLQSHREKIFNAGMAPVKVDTPQKSVEVTGEKAMSRLQMMEKLKESAMNNAPRTVIEYEK
CLIECLDYLHNVFEKNLVPFNKGPALVELFIFSDYSSIRRQIVGAPRGAIHNALSNPHHY
LQCSCCELKDNEQILPSMPDICIAYKLHLECNKFINLYDWLQAFSMVVDNNEDEESIKPE
VQARFTRATAELQFLGLIKQAKQKTDHVMRLTW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g6161.t1 Coils Coil Coil 20 40 -
3 g6161.t1 PANTHER PTHR12748 ORIGIN RECOGNITION COMPLEX SUBUNIT 3 21 693 8.0E-133
2 g6161.t1 Pfam PF07034 Origin recognition complex (ORC) subunit 3 N-terminus 30 318 7.1E-79
1 g6161.t1 Pfam PF18137 Origin recognition complex winged helix C-terminal 587 655 3.8E-20
7 g6161.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 208 -
8 g6161.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 209 232 -
5 g6161.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 233 383 -
9 g6161.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 384 402 -
6 g6161.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 403 693 -

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:0003677 DNA binding MF
GO:0006260 DNA replication BP
GO:0005664 nuclear origin of replication recognition complex CC

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