DreINT0090838 @ danRer10
Intron Retention
Gene
ENSDARG00000007906 | lrp2b
Description
low density lipoprotein receptor-related protein 2b [Source:ZFIN;Acc:ZDB-GENE-111115-1]
Coordinates
chr12:16149113-16151742:+
Coord C1 exon
chr12:16149113-16149333
Coord A exon
chr12:16149334-16151559
Coord C2 exon
chr12:16151560-16151742
Length
2226 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
CCCTGTTTCCTCACACTTAGATG
3' ss Score
7.71
Exon sequences
Seq C1 exon
CATGCTTTACTGGATTGACAATGGAAACACACCTCGTATTGAATGCTCCTGGTTGGATGGTCAAGAGAGAAAGGTTCTGGTAAACAATGGTTTGGGATGGCCAACGGGCCTGTCGATTGACTTCACAAATGGTGACCGGATTTATTGGTCAGATGCAAAAGAGAGTCGCATTGAGTCCATCCTGCCAGATGGACAGAACAGAAAGACATCGGTTTTCATAG
Seq A exon
GTAAGAGTTTGATGATTTACTCACTTAAAATATGAGTAGAAAACTTAAGTAGAAATTACTATTTATGAATCTACTTGTTAAAAAGAAGTGTGCTTTCTTGTATGGATTGCACACTTTTACACTATATATATACATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAATATATTTGCAGATAACATATTATTTAAAAAGCAGCATGATGGCTGCAAGTAAAATGTGAGGTAAAGATCTAATAGCGAGAGAAAAGTCAATTCACTGAAAAAAAAACTAAAACAAAACATGCAAGTCTACATGAGCCATCAAGATCACTAGAAGACAAAAAAATTACATTCAAAAACTGGACAATTAATTGAACTGTAATGGAAACAAAAATTCGAGGAACTAACCAAGGCATAGGTGAACACAATCAGTAACTGGGAAAACCAAATTACAATATGCTTATAAACAAACAACATATGACAACTTATTACTATTTGTGGGGACTAAACAGTAAAAATACGCACACTAGCAGTAAGCTGTATACTTTTAGTTATGTCAGTAAGTTATTAAAACAACGATTTAAAGAAGACTGTTGCTTTTTTGCTTGGTTGTGGATCATCCTTTAACATTCATTATGAACTGAACTGAACAAAACTCAATACAAGTACACTAGTATTCTGCATTACCGTTATTCTGCCACCTGCTTGATTTATTCCCAGGTAGCAAAGAATTCTGGCCCAGATTTGGCATAAAGCTGGCACGGCAGGCATTCATTTTGCAATTGCATAAAGCATGTGGGCTAAAGATGGGTCAGATTTAAGGGGGCAGGCATGACATGTGCCAAATGTTAAAAATTGATATGTGCGCCATGTACGTTTCTTGACCCATATTTTAAACACTTACAAATTATTTTTGAGAAAACAATTTGCGTCACGGTGGCGCAATGGGTAGCACAATCACTTCACAGCAGGAAGGTTGCTGGTTCGAGCCCTGGCTGGGTCAGTTGGCATTTCTGTGTGGAGTTTGCATGTTTTCCCTGTGTACCCATGGGTTTCATCCGGGTGTGCCGGTTTCCCCCACAGTTCAAAGACGTTTAAGTGAATTGAATAAGCTAAAATGGCCATAGTGTATGTGTGTTAATGCTAGAGTGTAAAAGGTGTCTTTCCAGTGTTGGGTTGAAGCTGGAAGTGCATTTGCAGTGTAAAAAATATGCTGAATTTGTTAGAAGTTCATTCCTCTGTGACCCCTAAGACAAAAAAAATGAATTAATAAATGAATAAAAAAATTGTTTAATACACAGAGTCATTTCCAGCTTCCTGTTTGTATCTTCTAATGCCTTCATTATCCAGGAAGATTCAGGGAACATAATTCATTCATTCATTTTCTTTTCAACTTAGTCCCTTTATTAATCTGGGGTTTCCAAAGCAGAATGAACAGCCAACAACTGAATTTAACGTACGTTACATGTATTTTATTAATCAAAATTTTATTTGACAGTTTATACTAGCCATACTAACCATTACCATTATTAATGCAACTGAAGCATCTCATGCTTTACGGGTTTATCATTTTCACAGCAGTTGTGACACACCAGGTCTAGTTTCCAGACAATGACCAAACATGGGGTATATCTGGCCCAGTTATTGGTTATTAACTTGGCCAAGACTTGGTCCACATGGTCCATATTTGGCCCTTGTCTGGAAGCCAGACTTGGTCCAGTCATGTATGGTAATTCACTGGAGCATGTGGTGCAAGCAAAAGCTGATTGTGTGGACCAGAGAAATGTTGCTATGTGTGTTTATCTGACTTTTATTACTTTACTGTTCTTCCTTGTTAAGCAGATTTGGCACAATCTACATTGTAAAAAAAAAAAACTTAATAGAAATAAAGGTGACTTGACCTGACGTTCAATTACTTTCATGTGTTGACTTGCATACTAACCTTTTTTTTTTTTTTTTCACTGTTTTGTGTTTTTTGATGTTGCATTTAAATTAACATTTTAAGTGTGATGAATAGTAATTTAACAAATATAATCTTTTTTTTTATCTTCTGAGGTGGCTAAAAGAAGCACCCTAAAGTTCTTCCATGTCGAAAAACATTGCTTTCATTTTATTATATTATTCAAAGTACCTTTAAAAAATTGGAAAAGTATGTTCTTGTATTATTTCCAACAAGGAACATTTAAATATCTTACCCTGTTTCCTCACACTTAG
Seq C2 exon
ATGTAAGAAACCCTTTCAGTGTGAATGTATTTGAAGACCATGTGTACTGGAGCACACAGGAAAAGGGTGAAGTGTTCAGACAGGACAAGTTTGGCAAAGGCACCAAAACCAGACTCCTTGTAACAGGACCTTGGCTCACCCAAATCAACATATACCAGCAGCAGAAATACAACTCTATAGCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007906:ENSDART00000152550:69
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=WD(100=56.0),PF0005812=Ldl_recept_b=PU(70.7=38.7)
A:
NA
C2:
PF0005812=Ldl_recept_b=PD(26.8=17.7)
Main Inclusion Isoform:
NA
Other Inclusion 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]