GgaINT1004507 @ galGal4
Intron Retention
Description
NA
Coordinates
chr2:549449-551698:+
Coord C1 exon
chr2:549449-550424
Coord A exon
chr2:550425-551571
Coord C2 exon
chr2:551572-551698
Length
1147 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACG
5' ss Score
10.19
3' ss Seq
GCAGGTGTTTGCGATTGCAGGTG
3' ss Score
5.06
Exon sequences
Seq C1 exon
ATTGCCGCCCTCCCTGTCCCCCCCCTCCCCCTTCGCGGTGTCTCGGCCGTCTGCCCCCCGTGTCACCTCCCCGTCCCCATGGCGACACGGCCGGGTGACAGCGGCAGCCCCCCCCAGCCTTCATCCCCGGGTGTCACCTCTTTGTCCCCATGACAACGGGGCTCGGCTGTCCCTTTCCGGCCCTCTTTGCCCCGCTGTCACCTCCGTCCCCCTGCCGGTCCCACGGGGCTGTAAGCAGCACTGGTGGGGGGGGGGGGAGGTAGGGACAAACCCACCGCAACGAGGGTGGTTCGGCCCCGGGCCGTGGAGGTCTCCAACCTATCGGTATCTCCATCCTTTGATTGTCCCCAGCGCGGGGGATCCCCAACCTACTGGGGCTCGCAGCCTATGGCTGTCCTCCCCCCACGGGATTCCCCACCCCTCGGCGTCCCCATCCTGTGGAGGAGCGTCCCCGACCTTTGGCTGCCCCCACCTCTGGGGTTCCCCAGCCCAGGGGCTCCTCAGACCCTCAGGGCCGTTCCCAACCTACGGGCCGCGTCCCCGCGGTTGCAGCCGTCCCGCTGACGCCCACACCCCATCCCCGCAGGTTCCGGAGTTGGGGATGCGGCCGCGCTGCCCCTCACCCTTCCAGAGAGGAAGCAGCACCTGCACCTCGGAGCGCGAGACGCAGACGGCAGAGCTGTCCCTGACGGTGGTGACGGCCGTGCAGGCGGTGGAGAGGAAGGTGGACTCCCATGCCACCCGCCTGCTGGACCTGGAGGGCCGCACCGGGGTGGCCGAGAAGAAGCTGATCGACTGTGAGAAAACGGCGACGGAGCTGGGCAACCAGCTGGAGAGCAAATGTGCCGCGCTGGGCACCCTCATCCAGGAGTACGGGCTGCTGCAGCGGCGCCTGGAGAACATGGAGAACCTGCTGAAGAACAGGAACTTCTGGATCCTGCGGCTGCCCCCCGGCAGGAAGGGAGAGGTGCCCAAG
Seq A exon
GTAACGGTGCCCGCGTCGTGCCGAGGGCAGGGAGAGGGCACTGCTGCGCCCCGAGTCCTCCTCGCAGCGGGGCAGGGGTGGGGAGGGCAGCTGTGAGCAGAGCTGCTCCCCATTGGGACGGGGGGGGCTCAGGCACTGCGTGAGCTTTGTGGTCCCCTCTGATGGCACATCCTTGGAACCGAGGTGGAGTTGAGGGAGGGGGGTTCACCTCCGGCTCACACAGCCATCCTCAGCACAACTGGGGTCTGAACCAGGGAACGGGGAGATTTGGCAGCGCTCTCATTGCCACTGCTTGGTGCTGGACCTACAGCTGTGTTTGGTACCGTTTGGTGCTGGATCCCAGCTCTGTTAGGCACCGTTTGGTGCTGGATCCCAGCTCTGTTCGGTACCGTTTGGTGCTGGATCCCAGCTCTGTTCGGTACCGTTTGGTGCTGGATCCATGGCTCTGTTAGGTACCGTTTGGTGCTGGATCCCAGCTCTGTTCGGTACCGTTTGGTGCTGGATCCCAGCTCTGTTTGATACCATTTGGTGCTGGATCCGAGCTCTGTTAGGTACCGTTTGGTGCTGGATCCATGGCTCTGTCAGACATTGTACGGTGCTGGATTTCCAGCTCTGTTTGGCACCGTATGGTGCTGGACCCCCAGCAATGGGTGCTGCTGGTACCCAGGGGAGGAGCACACGATGGAGACCCGCGGGAGGGCAGTGCCCGCCTGCACAGCTCGGGCTCCCAGACAACAAAAGGTGCCTGCCATGAATATTCATTCATCTGCTCCTTGCACGACGATGTGACCATTGCACCAAAGGGCACGTTTGCCTTTGGCACTGGAAAATGAGTGTTTGCACCCCGACGTGGCGCGCGGCGGTGAGGAGGCAGAGCAGCACAGGGCTCCCCTCACAGAGCTCCGTTCCTGCTGCATCCTGAATCTATCTGCAGGAATTACAGCTCAGCAAACAGCCTCAGAAACTGCCGTCCGCTGCTGGACGATTTGCAGACAATAACTGCTGATACCTCAGGGCCCGGGGAGAGCTTTCACCGGAGTTTGGGGGTAATGGAATCCGGTTTGACGTCAGCTCATCGGCAGGGATGAGGTCCGTGCAGCTCCTGGTTTTATCTCCAGGTCGTCTGAGCAGGTGTTTGCGATTGCAG
Seq C2 exon
GTGCCGGTGACGTTTGACGACGTGTCCGTCTGTTTCAATGACAAGGAATGGGAGAAGCTGGAGGAGTGGCAGAAGGAGCTGTACAAGAATGTGATGAAGGGGAACTACGAGTCGCTCATCTCCTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028282:ENSGALT00000042642:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.176 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF124173=DUF3669=WD(100=58.4)
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGGAAGGTGGACTCCCATG
R:
TGTACAGCTCCTTCTGCCACT
Band lengths:
345-1492
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]