GgaINT0137490 @ galGal3
Intron Retention
Description
NA
Coordinates
chr23:4680292-4681992:-
Coord C1 exon
chr23:4681842-4681992
Coord A exon
chr23:4680442-4681841
Coord C2 exon
chr23:4680292-4680441
Length
1400 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TTCTGTTTTCTTCTGTTCATTCC
3' ss Score
-0.31
Exon sequences
Seq C1 exon
ATGGCAAAGTGTGATGGTTGTAAGAGACAAGGTAAACTCAGCGAGTCCCTGAAATGGCAAGGAGAGGTGAAGCATTTTTGCAATCTGCTTTGTATTCTGATGTTCTGTAAGCAGCAACGTATTCCTGACCCTCCAGCCTCAAACAACACAG
Seq A exon
GTAAAACAGGATGTGACCAGCATTACCTCTTAATGTGTGTGATAATGATAGGAATGTTAATTTGGAAATTCAGTTTAGTGAAATCTCTAAGACCCTCTATGGGGGTGCTTGCCCATTGTAATTGAATGGGTTCAGTTTAAGATATGCCTTTTACTTAAGGCAGTTTCAAACTTCCATAGGTATGAAATGACGTTCATAAACCAAACCTATATTTTGATTTTAAATATTAAACATAAGCACTTACTTTTCATCTACTTTCCTAAAAAGGAAAGCCCATTTTAATAGGCTGAAATGTACTGATATCTACTGAAGACATGACAAATAGTTAGCTCCCTGTATTTGATAAGACAAAGGAGAATGTTAATGTTCGTTTAGCAAGAAAAGTCAAGTGGAGAAATGTTTAGATTCAATGGTTGTAAATATACATTTCGATGTATGCACTTAAAGTTGCTGGTTCTGTGTTGTCAGTAGGTCTTTGAAGACTTACATTTTCTGTGTCATGAGTATCAATTCTGAGATTAATGTATGTTGTAGCTGTTTTGTTGCTCATTATTTCAGCAGGTGGAATGGGGAGGAGGGTGGGAGTGAAGCCCACAGGAATAGGAACTGTGAGTTTCTGTAGGGAATGAAATGCAAAGGGAAGAAAGGAAGAAAGGCGCACAAAGACAGGAAGAGGAAGCGAAACAAAGGGCAGAAATAGCACTGATCCTAAAGAGGGGCATGTTCTCCCAGAGAGTGATGGTGACTGCAACAGTAAGGTACCCATTAAGCAATAAAGAATATTAACTGACAGTTTATAGTATGCATCAGCCCATACTATATTGAACTCTGTGCACATCTCCTGCTTACCTTGGTGGGGGTTGTTTTCTTTGACTACGAGTAACATATAAGTAACTCTATACCTTCAGGCCATAATTACAGTGTGTGATGTTCCTGATTTTAATCAGTATGTTTGGCTGTTAGTAAGGAAGTGGCTCAGAACAGTGTTTGTAATGAAATGCAATTATGATGCTTTCAAATAGTAAGAACCTAAAAGTTCCTCTGCAAGAGTCTCATAAAATTCACCTCATTCATTATATGTTAGGATCTTGAGGATGGTACTGAGCACAGTGGGGCATCTGCTCCTGTTGTCTCCTGAGTGCTGCTCTAAGACACGTACTATTAGAGACAGAAAACTGCTTTCATACTGTGATAAACTTCTGAAAAGTTTCAGTGAATTGAAAACAGCTGAAGTTTGCTTATGGATCCAGCTTCTATTTAAGCTGAAAACCTCCAGGTTGACACACTCTCCTCATAAAGCAGGCTTTTTCATCTGGAAATAAATCCGGAGGGTGGATGTTGTTTCAGAAATGCCACTGTGTCTATCATCGTATTGCTTATTTCTGTTTTCTTCTGTTCAT
Seq C2 exon
TCCATCCAGCAAACCCTTCTACAGCACCAGCTTCCTCATCAGGCCCACCTTCTTTGAGGAAGGACTCAACCCCAGTCATAGCAAATGTGGTGTCCCTTGCGAGCACCCCTGCTGCCCAGCCTACGGTTAACTCCAACAATGTTTTACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002499:ENSGALT00000003937:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.131 A=NA C2=0.579
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=PD(91.9=66.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGCAAAGTGTGATGGTTGT
R:
AAAACATTGTTGGAGTTAACCGT
Band lengths:
296-1696
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]