GgaINT0059806 @ galGal3
Intron Retention
Gene
ENSGALG00000006998 | Q5ZKF9_CHICK
Description
NA
Coordinates
chr5:17679341-17681084:+
Coord C1 exon
chr5:17679341-17679557
Coord A exon
chr5:17679558-17680794
Coord C2 exon
chr5:17680795-17681084
Length
1237 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TGTTTTGTTTTGTTTTTAAGGAA
3' ss Score
10.76
Exon sequences
Seq C1 exon
GTCATAAATGTTGATGGAACAATGAGGAAAACCCTCTTAGAAGATAAACTTCCACATATATTTGGGTTCACGCTGCTGGGTGATTACATCTACTGGACTGACTGGCAGAGGCGAAGCATTGAAAGAGTTCATAAGATAAGGGCTAGCAGAGACATTATTATTGATCAGCTGCCAGACTTGATGGGCCTTAAAGCAACAAGCGTTACCAAAGTTTTTG
Seq A exon
GTAAGTGTGATCAGTCATAGGGTGAGTCTAAAGTAGTTTCTAGAAGCTCTTGCTTTCACTAAGCAGCTATTCATCACTTGTGATGAGAATAACTATGGTCTTTAGTGTTTGAAACATTTTAAAGGAAACCTGCACTTGTTTTTTATACAGTTGGGAAAAGAGAGTGTTGTAAAAAAAAAAAAAAAAAAAGAAAGAAAAAGAAATTTGGGCTTCCAATTTTATAATGATATTCAGCATAAGTCCTCTGTAGCTTCCACCACAGTCTGAATTTTTGTGAGAAGAATTTTATTCCTGGCTCTGATCTCTAGAATTTGTGGTACTCACAGGATTGCACCATTTTCTGTTGCCCTTTTCCAGTACCAAGTCCCAGTGTTCTTCCATTGGCAGATTACATTTTACTACATGGAATGATAGAGGCAGAGTTAGTGGCTATTACAGAGATACCTGAATGCAAATGGCACTCTTAATTTTGAACATCTCAGCAATTAAATCTTGCCCTGAGTGATTAGCAAGTAGACTGAACTGTAGAAAACTCTCAATCATGTGGAACTCTTCATTTTACTATTGAAGGACTGTCAAGTCTTCAGATTGTAACTTGGTCTAAGTTGCCATAAGTCTGTATGCCTTAAAAAGGGAAAACCAAAAGCTGGGTGAGACTGATCTTGGAGATATTTTTGTGCTAGCATGTCTTTAGCTAAATCCCTGGTTCCAACTGATGGAGAAAGACACTCTTTTTTTTCTTTTGATCCTTACTTTTCCCTCCTTATTCCTGCACTGCCTTGTCATGGTCGTTGACTTGAACAAAGTAAATGAGAGATTGTAGTGATTGAACAGCTGGGAAAGAGCTGCAGTTACCCAGTTCTTTTCTCATTATTTTGTATCATGGGACTCAGACACATTTTTAAAGCTGATGATTTCAAAGAGGTATAAAGATGGAGTTCCGGACCAAAAATAGCTAGGCTGAATGTGGGTAATTGCTTGCTTTCAATAAAGGAACTAGCCTTTGGGGAAGCTGTAAAATATCTTTGTGGCAGTTCTTCATATATAGGAAGGGGATGGGACCAGCCTTCTACTGCCTGGCTAGAGGAAAAGAACCAGTTTTGAATGGCTCTGTTAACAGTCCATAAGGTTAACTTATTTTGAAAATTTATAGTTGCACTACATTTTCACTCAGCTTTACCCCTCCTCTTCCCCCATCTCCATAATACGCCAATATCTGTTTTGTTTTGTTTTTAAG
Seq C2 exon
GAACTAATCCATGTGCAGAGAACAACGGAGGCTGCAGCCATCTGTGTTTCTTTACACCCCAGGAGACCAGGTGTGCCTGTCCCATTGGCCTTGAGCTGTTGAGTGACATGAAGACTTGCATCATTCCTGAAGCCTTCTTAGTTTTCACAAGCAGAGCAGCAATTCATAGGATTTCCCTTGAAACCAATAATAACGATGTTGCTATTCCTCTTACTGGAGTCAAGGAGGCATCTGCTCTGGATTTTGATGTTTCTGATAACAGAATCTATTGGACTGATGTTAGTTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006998:ENSGALT00000011330:7
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:
PF0005812=Ldl_recept_b=PD(61.5=32.9)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=37.1),PF0005812=Ldl_recept_b=PU(24.4=10.3)
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:
TGACTGGCAGAGGCGAAG
R:
AGAGCAGATGCCTCCTTGACT
Band lengths:
357-1594
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]