GgaINT0126308 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:2295512-2297176:-
Coord C1 exon
chr17:2297059-2297176
Coord A exon
chr17:2295663-2297058
Coord C2 exon
chr17:2295512-2295662
Length
1396 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TTCTTTCCCCTGATCCTCAGGTC
3' ss Score
9.05
Exon sequences
Seq C1 exon
TACGGCCTTGTTCTGGATGCTGGCCCATCCCGCACCATCCTGTTCATCTACCAGTGGACCACCACCAAGGCAAACAAGACCAGGGTGATCAAAGAATGTAGTTCCTGTACGGTGCAAG
Seq A exon
GTAAGGTGCCAGATTCATGCTTGCTGGTCTCTGGGATTAGCATGGGATGGATAAAAACAGAAAACTGCATGGTCCATTGCTGCAACTTCCTTGGCTCCTGTATCAAGACAAGGCTGCTGAGCTCCTCACCCAGGAAAATGGTGAACAGCAATGGAGGGAAGCCTGGCTGCAGGATGGCTCCTGGCAACTTCTCCCTCCTTCACACTGTGCTCCAAGCACGACAATGCTAACCCCCTATGCAGGGCTTGATGGTAAAAGTGTGAGTTCTGTTCGGTTTTAGGTGTCACATTTTGGAAAATAGTGGGGTGTTCCTCACTAGTTTGAGTCACATCAGCCCCACAGACGCCAGCAAAAAGGGCTCCATGCCTTAATGCTTGGGGGTTTCCTTTTTTTTAATCTCTCTGTCTTGCTTTCATGTTGAAATGTGATTATCACAGGATGCTGTGAAACCCCGAACTCTCAGTAGCAAGGCAACCAGAGAACAAGCAGGGGATTGATGCTCTTGCAGACTACTAGCAAAGCAAACCACATACAAATAATACAACAAGGCTCCCTGAAACCTTGTGTATCCTTTGATTGGTACCATGGTCACAGTCTGGGATAAAAAAAGGAGCTGTAGCTCAGTCTTCAAAGACTTATTTGAAACTGCTGTAATAAGTTGTCAGCAGTAGGAAGAGACCATGGCAAGTTTCCTTCCCAGAAGAGAGAGGCAGTCCTCAGTCTGTGTGGCCACAGGCAAGTGGCAGCTCAGCTCCATGCAGGGCCCAAGAGAGTAAAGCTGATGGGAGGGAGACACACAGCCACCAAGACAAGAGGGGCAGAGGATGAGGAAGCAAGGCTCTTGGCTCTTTCTGGGTAGTGGTTCAAAACCAACCCTTAAATCCACAATGAATCGTGCTAGCAAGATGAGTCAGGGTTTGCATGCAGTTTCCCTCTGCACACCACCAACTTCCTCTAGAGCAGAGGTGTCCTGCATGTAGACTCAGGGTTCAGAAACCACCTCCGCCAACACAAGAGGAAGTGGCTGGAGGAAGGATCTGACATGCCAGTTTCAGTGCTCTCTGCATGGCCTTTTGCTCACCATTTATAGTGGTTAAAGCCACACTTTTCCCCCTCTGTGGGCTGAGACAGCTTCAGCTGTTGCAGCAGCCACACGTCTGATTCAGTCGCTCACAAGATACCTTAGCAGCATAGCCGGGGCTAGGTTAATGCAAACTGGCATTCACATGTTCAGCAGTTTGCTCCCAGAAGAGCAAGATGGAAGAACAGGATGAACTCCTTTGCTCCACCTGGGAAGAGTCCTGTCTTTATGCATGTCCTGGAGGCTCTCTAATAACAGTTCTCACTTCTCCCACATATTCCCATAGAAAATTCCATTCTTTCCCCTGATCCTCAG
Seq C2 exon
GTCCAGAAATCTCGAACTACTCACATTCTCCTCAGAAAGTAGGAAAGAGCTTGGATGCATGTTTGAACTGGGCCCAGAGCAAGATCCCGGCAGAGCAGCACAGCCAGACTCCCCTGTACCTGGGAGCAACCACCAGCACAAGGCAGCTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023909:ENSGALT00000040222:2
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:
PF0115012=GDA1_CD39=FE(15.9=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(20.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACGGCCTTGTTCTGGATGCT
R:
CTGCCTTGTGCTGGTGGTTG
Band lengths:
264-1660
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]