GgaINT0047293 @ galGal3
Intron Retention
Gene
ENSGALG00000009321 | Q5F3Q7_CHICK
Description
NA
Coordinates
chr7:18039639-18041803:+
Coord C1 exon
chr7:18039639-18039791
Coord A exon
chr7:18039792-18041035
Coord C2 exon
chr7:18041036-18041803
Length
1244 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
TCTCTCTTCTTCCTGCACAGATA
3' ss Score
10.87
Exon sequences
Seq C1 exon
AACCCAAAGGAAGCAGCGGAGGTGGCGGTGGCTTTGGAGGAGGTGGCGGTGGCAGCAGTGGTGGCGGCTTCAGTGGTGGTGGGCCACCTGGCCTTGGAGGCCTTTTTCAAGCAGGAATGCCAAAGCTCAGATCTGCTGCGAGTCGAGATGCTG
Seq A exon
GTAAGAAAGATCTTGCAATTTCAGTGCAAACAAGTAAATGACACATTGCTTATGTTGATTACACACCACAGCGATAAATTATCTGCTGGGATTGAGAATGCCTTCAGATATCTTAGGCTATCAAGAAATGACGTCTTCATCTTGAATCTTGTTTTATTTTTAATAATAGGCTTTATGAAGGGGAACTGAGACCCCTCTTTCCACTCCTCTCCTAATTATTGATGAAGACTAAAGATCTTGGCAGTGTTGAGTGGCTGCTTGCAAAGTAGAGTGAGGTCCTGCTTTAGCTGTGGGTGTGCGGGACTAGAGGGGAGCACAAGAGGATTCTGGATTATTTCTCCCTTCTGTACCAGGAAAAAAGATCAACTTTCCATTTGGAAAGTACATCTGCGTCAGCTCCTCAAGAGTGTGATTTACCACTTAGGGAGTGCATGAGGCATCCCAGCTGGCTGCTGCGCGTGCTGCAGTTGGAGGGCACACGCTGTGTTCTTCTAGCTGTCCAAACAGCTGCCCAGAGCTCCGTGCCCCTTCAAACAAAGGAAATCTGGAACTCACAAGTTTCCTAAAGCTAAGGATGTAGCATTTCACACTTGCTGAAGGAGGACTGGACAACAGGGATCACAAAATATTATGAATCCTGCATATTTTATGGACTAACGTAACTTTTCAGCACATTTGTACAGAACAGTCTCTCGGAGCTGGTATTTTCTATTGTGTCATGGTCTATTTTGGGAACTTGTATTAATGCAAAAGTTCCCGGCACAACAGGACAGTGTTTCTTCAACTACAAGGCTGGCTGCCTTCTTGCTGACATACACAAGTACACAAGTAACTCACAGATATTAGAAAGGGCTGCAAAGCCCTTTTGCTGGACAGCAGTTGTTAAGTTGTTAAATACCATTTCAGAGCTACGGCCCTTTTGCTTTTGAGTTGCTGGTATCAAATACTTGTTCTTCACCAGTTCTTCTCTTCCCTCCTGACATTATTGTTTGCTCCATGAGGGCTGTATACTCGTGTTGCCTTGCAGTCACTTGGGTCGCCCCCAGGCCATTCCTCATGAGCTGGGAGGACTTAACTGCTGTGATGGAGATCCCAAATAACACTGAGATTGCTGCTGACTGTTCCTGCGGAGCATCCCTGAGCACTTGGGCAGCTGTGTCCCAGCATACAGTGTTGCTATGTGAGGAAGGCCCTCTCTATGGATGCTGATGCCCTCTCCCTGTCTCTCTCTTCTTCCTGCACAG
Seq C2 exon
ATACTGGGGCAGCCCGCCCACCCGCACTGCCGCCTGGAGCCCGCTCTGCTGCTGCCAAGCCATTTTCAGCACCAAGTGGCCCACCTCGCTTCCCAGGGCCGCCACTGGGGCAGCGGAGCCCAGCTGCTGACCCTCAGAGGAGCCGCCTGCCACCACCCAGGCCCGATGTGGGTTCTAAGCCTGAGGCCACACCGCCACCGGTGCCTAGCACACCCCGGCCCATCGCCTCCAGTCTGCACGGCCGGGGTTCAGCACCAGCGCCAGTCCTCAACCGCCAGCCCAGCCTGGGGCCGACGCCACCGCCATTCCCAGGCAGCCGGGCCGCAGGGTCAGCTGGGTCCCTGCGGCAGCCTGGCCCGGGCCCAGCAACCCCATACTCGGGCAGACCACCGCTGCCACCCACACCCGGCCGCTCACCAGTGGATGAGAAACCACCGCCGCCACCACCTCCCTCTGGGCACCGGCCAACTGCCAGCCGGGACATGGCCCTGCCGCCGCCACCACCACAGAACAGCAAACCACCTGTGCCTGCTTCACCGCGGCCACCCCTCGGTGTCCCTGCACCCCCACCACCCCCCAGCAGGCCAGGGCCACCCCCTGTGCCCCCCGGTCCCGCCAGCAGTGACGAAATGCCACGACTGCCCCAGAGGAACCTGTCCTTGGTGCCCCCTGCTGCGCCTAGCTCTGGGAGTGGCCGCTCCGGCCCCCTGCCACCACCACCCAGTGAGAGGCCCCCGCCACCCATCAGGGATCCCCCCAGCCGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009321:ENSGALT00000038663:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTGGAGGCCTTTTTCAAGC
R:
GGCTGGCGGTTGAGGACT
Band lengths:
342-1586
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]