GgaINT1016977 @ galGal4
Intron Retention
Gene
ENSGALG00000011558 | LRP6
Description
low density lipoprotein receptor-related protein 6 [Source:HGNC Symbol;Acc:HGNC:6698]
Coordinates
chr1:71853401-71857539:-
Coord C1 exon
chr1:71857207-71857539
Coord A exon
chr1:71853613-71857206
Coord C2 exon
chr1:71853401-71853612
Length
3594 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
3' ss Seq
TCCTTTTATTTTTTTTTTAACCC
3' ss Score
0.37
Exon sequences
Seq C1 exon
AAACAGGCCTTGACCGTGAGATTATAGCTGATGACTTGCCTCACCCATTCGGCTTGACTCAGTATCAGGATTACATTTACTGGACAGACTGGAGCCGGCGCAGCATTGAACGAGCCAACAAGACGAGTGGCCAGAACAGAACTATCATCCAAGGGCATTTGGATTATGTTATGGACATCCTGGTCTTCCATTCCTCCAGGCAGGCAGGCTGGAACGAGTGTGCCTCTAGCAATGGCCATTGCTCTCATCTCTGCTTAGCAGTCCCTGTTGGTGGTTTTGTCTGCGGGTGCCCTGCTCACTACTCTCTGAACTCTGACAACAGGACTTGCAGTG
Seq A exon
GTAAGCGATGATGAAGTAAAATGACATACAGTAGCAGATGTATTTACTAATGGATGCAAGCATGGTACTTGCAGGAAAGAAGAGTTTTACTTTTAGATGAGATGGTCAAGCTTGCCTTGCTGATAGGCCCAGTTAAGTCTAGTTTCTAGTACTGATTGTGTATTTGAAAAAATTTTGGTTCCCTCTCTACCTTCAAAAAGAGCAGGGTATGTACGGGATAAAGATAACAATAAAAGTATGCATTTTTAAGTATAATTTTTAATACTGAAATCCTTCTAACTTGAAAGGATAGGGGAAAAACTTAGAAGGAAAAAGGAAATCTAGGAACACACCAGTGTCTCAGTAAAAAAAAAGAGAAAAATGGCTCAAGTGAAGCTTTTCAGTGACTCAGTGAGCTAAATCTGTATAAGTGGGAAAGCCAGACATGCTTTTGTTTTCATATCTGTCTGTCAACCCTTATCAAGTGCTTACTTGCCTTTTTGTTTTTCTTTTTTTCTTTCTAATTTTGCCTGCTATCAAAAATGTGTGGTAGTTCAGTGTGTGCGCTCTGGAGTTTGCATAGCTTTCCTGTGGGTTAAGATTTAATTCTGTAGCACTTCTGTTTGCTGGTTGATGTGATGCTGTGGTAGGTCACTCTTACCCCCAAAGGTGAGTTCCTTCCCCAGTGAGGAGGGGATGAGCCCCACTGCCTCTGCAGCACTTCACATTTTTCATCTTAGTGCAGCCAAGTCCCATTTTTCTTCATTGTTGTGCAGAATATGAACCACAAGGCCCCTCAGGCTGTGTGTAATTAGTTTCTAACCAAATAATTTATCCATCTCTCAATAACTGGCTGCCAGTGAAGCACTCACAATTTTGGCAGGCATGCTGGATGGCTAATTTCCACTGATGTCATTCAGATTAGTAGGTGGGTTAAGAGATTCGTGGTACAGAGAGACAGATTGTATCTCATCTGCATTATGCCTGAGTAGAGAGATCCAACTGTTGTTTTAAAGCCAAAAGCACGGTAGCCTGTTCCATGAATGCCACCTCATAAATTTTTTTGAAAATAGTGCTCCATAGAGAAGCCTGCTTTGTCCCCCAGTGTGTTCTGAACTCCTTTCCTTTTCAGTTACAAGAGGTGCTTGCCTGACAGCTGGATTTTTGTATGTGAACATTCTCACATTTTCCTGCAAGTTAGAAGCACAAATGACACCACTCCAGTGGTTACTGTGATATTATAGGTGGAAGAATTTGACTTCCAGTGGAAAATAAATAGCAAAATGATGTTTTCCTGTGAGAAAGCACTCAATGCAAATTGGGAGAAAAGTAGGAAAGGAAGAAGAAAAATAAAGGAAATAGTTGCGAACAAACAGAACTGTCTCCGTGCAGAACGGTTCAATCTTTCATAAATGTATTAGGAGTATTCCTTTTGCCATGTTCAAATCTGGTAACTTTCCAGCTTCTCATTTGTAGGTAATTGGAGACTTAGGCTTCTCTGCTTATAATTTAATTTTACTCTTGGCCATTATAATTGGAGCATGAATCATTTTAACTTTCCCTTGCCTGTTATACTTGCTTACATATTCCTGAACATTATTATTATCCCAAACCCTGTCTAGAGTCCAGTTCCTCCATTCTGGATCACCCTGCTTATGTGTGCATAGATTCTTTTAATTATGGGAAGGACACACTGAACTCACTAGATCTGGTATCTCATCAGACCTATTGTGTGTTGTGAAGTTTGAATGCAATATTACACAAGAGATTTGCTCATTGCATTCCATTTGCCCTCCAAAAATATAGTTAAATTATGTGACAATTTGGAGAGAAAATGCTGAAAACTGGAAAGTGATTTCTGAAATTGATGCTGTTTCAGAGATGTGGGGACTCAAAGGGAGAAGTTTACTGTTAGTCTTTATAATGAGCTATCAATTCAAAGTTGGAAGCCAGGCAATCTTAGACAGTGGGAGGGACTCTTTGGGGAAAAGAATAGAAAATATTAGGTTATTATGATAGTATATTTGTCTGCACTGTTTTATCTTAAGCTTTTTTTCCTTAGCGTTAATCTCTTAGCTGCTTGATAAGAATACTGATGTCTTCTTAATCTGTTAGTTTGCTCTATACATTCAATATACAGTTTTGTTTGCTTTTTATGTGTTTTATTCTACAGTTTACAGCTAAGAGGAAAAAGGCTTAAATTTTTGCAGTAACATTTGGAGGAGAAATACAGGTTTTCCAGAAAGCAACAATACCTTGCAATTAGGCCTGGTTGTTTTAGGAAGTTACGATTAAGTGTTAGTTACCAAGGCAACTTCCCCATGCACTCTTTTTCTTTGTTGTTCTTTCCCAGCAGCAGATAAATGCGTATGCCTAAAATAACAAAGAAAGGTGATGTTGTTCTCTGGAAGGCTTTTGCTTACCTTCTGTTGCCAAGATATTGCCTTACCTGTTTTACAGGCTGGATTGAATGAGCACAGTGTCTCACTGCTAATCTCTCCAGATTTGTGCTATAGGCAAATTGATTATACAAACTTCAGGGACGCTGCAAGCTGCATTTCTGGCTGCTCCCTCTTGTGCTGTCCTGCATAGTAGTGGTTCCAGGTAGACCATTGCTGGAAAGAGTGCTGTGTAAAAGGGGAGGCGTTTTAACTACATCTACACTTTTCTGACAGAGTTACGTAATACAGGGAATAATTCCTTTTTAATAGTATAATAAACACCTATGCCTTACATGCTTACTGCTAGATACAGCTGTTAAGTTACAGTTAAAGAGGATGAGGAAGTCTTATTTTCTGATGTTTGATAATGCCTTCAAACATCAGGTCTATAAGAACAAGTATCATTTATCCAGGAAGTTTTTGCTGGGCATCTGGAAAGCCAGAGAAGAGCATTTGATGCTTTTCTGAATGCAGGTCAGTGTTCTTAGATATGCACCAAGGAATAAGCAAGATAGATAAATCTGAGAAGAGTGAAAATAATTTTTTTCCATCAAAAACCCAACCTGCACACAGGCTATTAATTATTTGTTGTTCCATTCTGGTGCTGATAGAAAGGGTTTGCAGTAACAAGATGGAACCGCCAAATGGCAATCTCTGAACCCTGTGACCTCTAAATAAGGAGCCACTGCTGCATTTCGCTCAGCATCCTCTGCAGTCAGAGGAATTGAAAAAAAAACTTTTTGCATACCTAGCAAAAAATTTAAGCTCGAAATAGTGGAGATGTGTTTTCCTGGAATCCTTTTAGAAAGAAAATTGACAGTTCCTTGAGAGGCATATTTGACTGTTAGTGAGGTAATTTTGACACAAGTCTTCACATTTATTAGACTTGCAACTTACAGAATTATCTTTGCTAGTCATATCTACGTTCAGATTTTTGTAGTAATCATTTAGAAGGCTTTTCAGACTAATTAGAGGGCTTTTTGTGTTGTGTTTTGGATATACTTGGGTTGTTTGGATTTTTTGTTTGTTTTTGATCCTGTTTGTTTTCAAAGGAGGAATAAGAGGAATCAAATAATTGACATCGTGTTTTATAAAGTAATTTTTATTGAGTATAAAAATACTCAACATTATTGGTGTGTGTAACCCTTTCCCTCTCCTTTTATTTTTTTTTTAA
Seq C2 exon
CCCATCAAGCTCCTACAACCTTTCTTTTGTTCAGTCAGAAGAATGCAATTAACCGCATGGTGATAGATGAGCAGCAGAGTCCAGATATCATACTTCCTATCCATAGTCTCCGAAATGTTCGAGCCATCGATTATGACCCCCTGGATAAGCAGTTGTATTGGATTGATTCGCGGCAGAACATCATTCGGAAGGCACAGGAGGATGGCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011558:ENSGALT00000018841:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PD(48.7=17.0),PF0005812=Ldl_recept_b=WD(100=36.6),PF146701=FXa_inhibition=WD(100=33.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]