Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative exonuclease GOR.

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_1 g12066 g12066.t5 isoform g12066.t5 20730520 20731808
chr_1 g12066 g12066.t5 exon g12066.t5.exon1 20730520 20731808
chr_1 g12066 g12066.t5 cds g12066.t5.CDS1 20730609 20731808
chr_1 g12066 g12066.t5 TTS g12066.t5 20732287 20732287
chr_1 g12066 g12066.t5 TSS g12066.t5 NA NA

Sequences

>g12066.t5 Gene=g12066 Length=1289
CACTTGAGCCACCACTTAGACAACATACAAAATTAAATTTAACTGAAGCACAATTGGTGC
ATTATTTGCGTAATTATTTGCTCGATGAGATGCTCATGCGTCTTCTTGGTTTTCCAATCG
AGCATGATTTAGCACCAAATCTTGCTATAATCTACAAATATCCACCATATGAGTTTATTT
CGCAACATCGTTCAGCTATGGCTAATGCAAATAACTCATCAACTTATTATAGTGGCAGTC
CTATTTTTGTCAATCAACATGATGGTTTGACTTCATCATCATCGACAAAAGAGAACTTTA
ATGATAGTGATAGTGGTCAAGGCTCTGGTTCATCATCACCTTCCGATGACTTCGAATTGA
ATCAAGCACCGACTATCAAACCATTGCCAAAGCAGTATATGTCAATGGTGAGTTCACAGA
AAGAGTGCACACGCTGTGGCAAAGGATTCTTCGTGACCAATGATGGCGAATACGTGACAA
CCGAACCGTGTTTGTTCCATTGGGGAAAAGTCAATCAATTCTTTGATGGACATCAGATGC
GACGCATTTATTCATGCTGTAATCGCGATCATAATTCGCACTTTAATAACGGTTGTACAG
CAAATAGAGTTCATGTATGGACAGGAGTGAGTGCTGGTCTCAATGGGCCTTATGATGGAT
TCGTAAAAACAAAGCGACGACCTGGACCAAGACCAGAAAATACAGGTGTTTTCGCACTTG
ATTGCGAAATGTGCTTTACAGGCTGCGGTCTAGAGCTTACAAAAGTGACAATAATAAGAT
CTGATGGAAATTTGCAGTATGAGAGTTTTGTGCGACCCGATCGGGAAATTGTAGATTTTA
ATACACGTTTCTCGGGCATTACAGAGAAAGATCTGAATATAGGTATTCACGGCAACTACA
ATCGTCATGCATCAACTGCCTCAAATTCGAGCTCAAGTTCAACAAGCTCAAACGGCTATC
ATAGAACCGTTAAAACTCTGCAAGAAGTACAAAAAGATCTTCTCAAGTTCATCTTCGAAG
ATACAATACTGATCGGGCATTCGATCGAAAATGATCTCAAAGCATTGAAGCTTATACACA
AAACTGTCATTGATACGGCAATTGCTTTTCCACACTATTACGGTTTGCCTTATCGACGAT
CATTAAAATCACTCACAAAGACCATTCTTAAGCGTGATATACAAACGGCAGAAAATGGTC
ATTGTAGTTTTGAAGACTCTAGAGCATGCTTAGAATTGATGTTATATAAGGTCAGGAAAG
ATTTTCGAGAAGTACTTGAGCAACATTAG

>g12066.t5 Gene=g12066 Length=399
MLMRLLGFPIEHDLAPNLAIIYKYPPYEFISQHRSAMANANNSSTYYSGSPIFVNQHDGL
TSSSSTKENFNDSDSGQGSGSSSPSDDFELNQAPTIKPLPKQYMSMVSSQKECTRCGKGF
FVTNDGEYVTTEPCLFHWGKVNQFFDGHQMRRIYSCCNRDHNSHFNNGCTANRVHVWTGV
SAGLNGPYDGFVKTKRRPGPRPENTGVFALDCEMCFTGCGLELTKVTIIRSDGNLQYESF
VRPDREIVDFNTRFSGITEKDLNIGIHGNYNRHASTASNSSSSSTSSNGYHRTVKTLQEV
QKDLLKFIFEDTILIGHSIENDLKALKLIHKTVIDTAIAFPHYYGLPYRRSLKSLTKTIL
KRDIQTAENGHCSFEDSRACLELMLYKVRKDFREVLEQH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g12066.t5 CDD cd06145 REX1_like 208 385 9.05289E-84
8 g12066.t5 Gene3D G3DSA:3.30.420.10 - 203 399 7.9E-50
7 g12066.t5 MobiDBLite mobidb-lite consensus disorder prediction 63 87 -
1 g12066.t5 PANTHER PTHR12801:SF138 FI18136P1-RELATED 96 262 2.9E-84
3 g12066.t5 PANTHER PTHR12801 RNA EXONUCLEASE REXO1 / RECO3 FAMILY MEMBER-RELATED 96 262 2.9E-84
2 g12066.t5 PANTHER PTHR12801:SF138 FI18136P1-RELATED 292 390 2.9E-84
4 g12066.t5 PANTHER PTHR12801 RNA EXONUCLEASE REXO1 / RECO3 FAMILY MEMBER-RELATED 292 390 2.9E-84
6 g12066.t5 SMART SM00479 exoiiiendus 206 393 1.2E-31
5 g12066.t5 SUPERFAMILY SSF53098 Ribonuclease H-like 207 388 5.96E-28

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:0003676 nucleic acid binding 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