GgaINT0048260 @ galGal4
Intron Retention
Description
NA
Coordinates
chr7:15833129-15834832:+
Coord C1 exon
chr7:15833129-15833552
Coord A exon
chr7:15833553-15834550
Coord C2 exon
chr7:15834551-15834832
Length
998 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
GCCCGCTGCTCGCCCCGCAGGCT
3' ss Score
9.82
Exon sequences
Seq C1 exon
ATGATGGAAAGAATAAGAAAAGAGATGATCCTGATGGAGAGAGGGCTGCACAGCCCTACGGCTGGCAAAAGGCTCTCGAATTTGTCAGACTCAGCTGGAAATGCGGTGCTGGAGGCCCTCGAAAATTCGCAGCACACTGGTCGCCTCAGCCCGAGACTAACTTCCTCCTCCCTGCACGGCGCGATAGGGGACATCTCCGCCAAAGGCAAATTCGAAATAGACGCTTTGTTCAACCTGCAGCATCCGAGCGGCGAAAGCACCGTCTCGTCCGAAATCCCGCCGTCGGAAAGCAGGAAGAAAATCAGCCTTTATCCCGAAGTGGCTCAAGAGGCAGAGATGAACAGCGACGTGGAGGTGGGCTGCTCGGCGCTGCGCTCCCCGGCCAGCCTGCCTTCCTCGCAGCTCAAGGAGAACGGCACCAAAG
Seq A exon
GTAACTCGCCGCTCTCGCCTCCAGCGAGCCCCGCGCTTCGCCGCCCGCGTTTCCAGAGCCCGGCGACGCCGCCGCCACCGCCAAAGTTGCTGCCCTCTGCCCACGGCGCTCTCTCTTCCGCGGAGGCAGCGCCGGGGCTGTAAAACGTTACGGGGCTCGCCGCGCTGTTCCCGCAGCCGCGACGCGGCTCGGCCGCGTGTGTGCGTGCCCGAAGCCACCGCCGTGCGGGGATGCGGCCGGGACGGATGTGGGCACCGTCACCCACCCACCCACTCGCCCGCAGCTAGGGAAACCCTTCTCCTTATTTTTTTCCGCGAGCTCCCGGAGCTCGGCGCGTCTCTCGAGCTGTATATATATGTGTGTGGATGTGTAGCTACACATACATATATTAAATTAGTGAGCCAGAGAGAAGTGTGAGGAAACGGTCCTTATTTGTCCGCGTTTGCCCTTCTCTGTGTACACGCAGCGTGCCATTCCGTGGCCATTTAAGAGTAATTGGGCATTGTTCACCGTTCCTCTGTTTATAGCGGAGGCTCAGAGGCAGCCCCGTCTGTCTCCGCTTTGCGGGGCGCGGTGACGGGCGGTGGTTGTTATTATCGCTGTAATTGGGGAGGGGGAGCCAGGTGAGCGCGGATCTCCTAGGGGCACGGTGCGTGCCTTTTTCGTCAAATGTGCCAAAGAAAGCGAGGCAGCCTCGACGGAACGCGCGAGGAAAATCGCCCTTAAGGCTGCTCGGCTTTGCTTCGCCCCTAACGGCTCCGAGCCCTTCCCGAGGCACGGTGGTTGCAGGCACGGCACGGCCCGATTCTCTCAAAGGGAGGGGGGTGGGGTGGGGGGGAAAGGAAGAAAGAAAGAAAGGCAAAAAACCCACCCCAACCTCAACCGTATCGATCCCATTAACAGCCGCGATTTGTAACGCTGACAGCTCGCGGCGGGGCAGGGCGGCCGGTTCGGGGGCAGCCCCGCCGGCCGCTCTCAGCCCGCTGCTCGCCCCGCAG
Seq C2 exon
GCTTCGCGGAGAGCAGCCCGGCTCCCAGCACCCCCGCCGCCCCCGGGCTGGGCCTGCACGGCGGCAGCGCGCTGAGCGGTTCGGCGGCGGGGGCAGACCAGGTGCGGCGGTACCGCACCGCCTTCACCCGCGAGCAGATCGCCCGCCTGGAGAAGGAGTTCTACCGCGAGAACTACGTGTCGCGGCCGCGCCGCTGCGAGCTGGCGGCCGCCCTCAACCTGCCCGAGACCACCATCAAGGTACGGAGCCCCCCCCCCCGACCCTGCACCCCCGCGGGGCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020768:ENSGALT00000033279:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.669 A=NA C2=0.632
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=48.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCGTCTCGTCCGAAATCC
R:
ACACGTAGTTCTCGCGGTAGA
Band lengths:
347-1345
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]