GgaINT0048547 @ galGal3
Intron Retention
Description
NA
Coordinates
chr7:21392867-21393977:+
Coord C1 exon
chr7:21392867-21392986
Coord A exon
chr7:21392987-21393882
Coord C2 exon
chr7:21393883-21393977
Length
896 bp
Sequences
Splice sites
5' ss Seq
TCATATCCT
5' ss Score
-34.24
3' ss Seq
CTTACCTCCCTTGACTATAATCT
3' ss Score
-3.21
Exon sequences
Seq C1 exon
ACTTTCATAGTATTGAATAAGGGAAAGGCAATTTTCCGATTCAGTGCCACATCTGCCTTGTATATTTTAACTCCTTTTAATCCCATCAGAAAAATTGCTATCAAGATTTTGGTACATTCA
Seq A exon
TATCCTTTTATTCTTGATGTTGATTTAAACCTTGCCCTTTACAACTGAAATGATTACTGAAATAATACTTTTCATATGGATTTACAAATTATGTCCATGTGGGTGTACTATCTATGTTAATTAAACATACACTGATAAGACCTAAAAAGTAGCCATGTCACATCTTAATTGAAGTATGGTCTTTATTTCTAACAGGAGAATTCTCTGCAGAACCACTTAAAGCTGAAAGAGTTTAAATATCAGGCTTTATATACGAAAAGAGACTTGATACCATGCAAAGCCCCGCAGCTAAGGCCAAATTAGTAACGAGCCATTGCACTTCAATGTATCTAAGGTCACTCTTTTACTAAGACCAGTAGTACTATTCATATACTTCACTCACTTAACAAGGACAAAAGAGCATGAGTAAAGAGCTGTTTTTTCAGGCATACATTTTCAGTATTGTGTTTTCAGCATTGGGTTTGATGTTCTATTAAAAAAAACAGGTCAAAATAGAGAATATTTTCCAATATATTTCAATCACGTCCAAATAAAAACTTGGGTGTGTGCAAACAGTCTCTGCATGCAGATGTTTTAGAATGAGCCTCCTGGCTTTAATGAGAAATTATGTTTGGGTACTCATTTCATATTTTTACACATTTAAGTATGTATTCAAGTTTAATTTAAGTCCCAAACCTGCCATAATTATAAAAGCAGTGCAATGTTTTACAGTTACTACACCATAACATGCCAGATGGCATACTGTTTTAAATAGACAGAATTATGTACAAAGCTTTATTTTCAGATTTTATTCAGCATTTCATGTTATTTGTACATATTTTCATGCACTTAATATTTTAATGCTTTCAGTGTTGTAAAATGGTCATGTTTTTCCGACTTACCTCCCTTGACTATAA
Seq C2 exon
TCTACATTATTCAGCATGCTTATCATGTGCACTATTTTGACAAACTGTGTATTTATGACCATGAGTAACCCTCCAGACTGGACAAAGAATGTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011040:ENSGALT00000017981:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0052026=Ion_trans=PU(0.7=6.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATAGTATTGAATAAGGGAAAGGCA
R:
TCTACATTCTTTGTCCAGTCTGGA
Band lengths:
211-1107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]