GgaINT0100166 @ galGal3
Intron Retention
Gene
ENSGALG00000007943 | Q766Y2_CHICK
Description
NA
Coordinates
chr2:18232014-18233730:+
Coord C1 exon
chr2:18232014-18232121
Coord A exon
chr2:18232122-18233593
Coord C2 exon
chr2:18233594-18233730
Length
1472 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
AACCTGAATTCTTTCTGCAGGTG
3' ss Score
9.35
Exon sequences
Seq C1 exon
GTGAAATACAAAGAGCAGTTCAAAAAAGAAATGAAGAGCCACCAGTACAATCCTCTTGACAGTGCTTCCTTCAAGCAAGCGCAGATTGCATCCACCTTGGCAAGTAAT
Seq A exon
GTAAGTGAATTTGCTTTGTATTTTACATGTGTTTGCATCCCCAGAAATCTACCATTTATTCTCAACCAGAAGTTTCCATTTTACAAGTTACTACTTTGAGATCAAGTTTCTTCTGTATAATGTGTCTGTATAGCAGGTACAGCATGTTATCTGTTTATTTCTCTGCTTCTTACAAAACCCTTCTCCAAGGCTCTGCAGAGTTTTTCATGACTTTGTATTGAGGAAAGACGAATACCAATGTAGAGGTAAAACCATCTGACCAGTCTTAAGAAGGAGAGAATTACCACCTTCTCTCCAGTAGTTGTAGGAGGGGGTTAGCATGAGTCGTTTAGATTTGCACGTCTCTCTCTTAGCTTTCATTGTATCTGTTGATCTTCTGATCTTTATTTTAGAGTAAACTATTTCTAAGATTCCGTATGGGTGCTGCTGCCGGAGTCAGATTGAAGAAAACATCTTTATCAAATGATAATGATATCGGGATGATATATTTAACAGTATGTCCAATGCTAAGAATGTGAGCTCTTCTTTGAGGGCGTGATCCCCTACATGCTTAAAGACAGCATTTACTTCTGTAGCATGTTGTTTCCAAAGTGTAAGGCACCACTCAAAGGAAACAGGGGAGGCTGGCTTTGAGAAGGGTTCAACAGAATAATTGTTTCCAAAATCTAACTGTTTAGTAAAAAATAAATAAATAAAAAATTGTTAGAATACATATTATTATAAAATAAATGTAAATTCAGTGCTGTTGATTTGAAGGTTGTCTAGTTCAGTGAAGAGCATGATGTATGTGAGAAGGTGACTTGAAGGTATTGGCTCAAGAGTTTTATCGTCTAAGACAGCTAATCTGGATAGCATTCGTTCTGTAAAGATGGGTGTCCAGATATCAAAAGTAAGGAAAATCCTACTGTAGGCTGATAGGAAGTTATCTTCTGCTACTTCATTAAGTGATTAACTTTCGCCATAGATGATTATATTTCTTATCTTTGCTGAAAACAGTATGTATTAAATAAAATATCCTGGAGCATTGCCCTTTATCTGTTTTATGTAGATTTTTAAAATTTGGGCAGTTAGTGTAATATTTGAATCAGGAGAGAGAGAACAATATTCAGCAGCATTTAAAATTAATAAACACAAAGCATTGAGGAAAATGCACATTTTATAACTTTTCTGCAGAATTGTTTTGAATAAACATCAACAAAAAATCTTACGTAGTCTGAAATATCATGCAAAGTATGATTCTGTGATTTTTGTCATATCTTTTTTGACTGAAGCTTCGAGTAGTTCCCAAGCGGAGTGAATCCGTTATTTTTTGCTTAGTTCCCAAAATAACAGTAAACGAGCACCATCTAGTGTCTGATATAGATTGTTCAGGCAAGTGCTTAATGCTTATGTTTCTGGACAGGCTCACTGCAGTTTTCGCTGTTAATTATGTTGTTAATCTTTATTTTACCTAACCTGAATTCTTTCTGCAG
Seq C2 exon
GTGAATTACAAGAAGGATTACAAGGAAAGTCTGCATGATCCAGCTTCTGATCTACCAAACCTGCTGTATTTAAACCATGCTTTAAATATCAGCAAAATGCATAGCGATGTAAGTTGCCTTTATAATAATGATCTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007943:ENSGALT00000012903:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.080
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=30.6),PF0088013=Nebulin=PU(55.2=44.4)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=23.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAAATACAAAGAGCAGTTCAAAA
R:
GGCAACTTACATCGCTATGCA
Band lengths:
226-1698
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]