HsaINT0145446 @ hg19
Intron Retention
Gene
ENSG00000073060 | SCARB1
Description
scavenger receptor class B, member 1 [Source:HGNC Symbol;Acc:1664]
Coordinates
chr12:125267229-125271049:-
Coord C1 exon
chr12:125270903-125271049
Coord A exon
chr12:125267358-125270902
Coord C2 exon
chr12:125267229-125267357
Length
3545 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
TTAGCTTGGTTATCTTCTAGGAG
3' ss Score
6.64
Exon sequences
Seq C1 exon
AGCGGGGCCATGGAGGGGGAGACTCTTCACACATTCTACACTCAGCTGGTGTTGATGCCCAAGGTGATGCACTATGCCCAGTACGTCCTCCTGGCGCTGGGCTGCGTCCTGCTGCTGGTCCCTGTCATCTGCCAAATCCGGAGCCAA
Seq A exon
GTAGGTGCTGGCCAGAGGGCAGCCCGGGCTGACAGCCATTCGCTTGCCTGCTGGGGGAAAGGGGCCTCAGATCGGACCCTCTGGCCAACCGCAGCCTGGAGCCCACCTCCAGCAGCAGTCCTGCGTCTCTGCCGGAGTGGGAGCGGTCACTGCTGGGGGCTGCGCAGCACGCTTGCGTCTTTTGCATGCCGCGTTGCCACTACTCTGCCTGTTCTGGAAGGCCTGGGACCCTCCCTTGGAGGGGGCACAGGTGGGCTTTGAGTAATGAGACCTGGTACTTGCATCATCCATTCATCAAGTCAGCACCCGGGGATGCCAGGTTCTGTTAGGGGCGAGGGGACGTACAGCAGTAGAGGAGACAGCTGAGATCCCTGCTCAGGGGGATTGAGGGGGGCTGGCATCCCAGCCGGGGAGACAGATGAAAACCAAGTAAATCAGCAGAAAAGATAATTTCACTCATGATAGGAGCTGTGAGGGGTTAGAGCCAAATAGAAATACAGCGTGAGCCACGTGTGAGGTTTTCAGTTTAAATTTTCTAATAGCCACTTAACAGTCAAAGGAAACAGGTGGAATTAATTTTAATCTTATTTAACCCAAATATATGCAAAGTATTATCACTTCAACATGTAATCAGTATAAACGGCATCAATATTTTTGCAGTGTTTTTGCATGAAGTCTTTGAAATCCTGTGTGTACGATACATGTGCAGCAGGTCTCATTTTGGACTGGCCCCGTTTCAAGGGCTCACCAACTGAATGCAGCTTCCAGACTGGAGAGTGCATGTCTGGAGCAAGTGGGGACAAGGACAGATGGAGCTTCAGGAAGGCCTCTCTGAAGAGGTAGATAGTGAGCTTTGACATGGAGGCCAGGGAGGCACTCAGCACACAGCCACATGAGGAATGCTGCCTGGAGCGGCCACTGCAAAGGCCCTGTGGCAGGGACAGGCAAGGCACATTGGACGGTCAGGTAGGGCCAGGGTGGCTGGAGGGGAGTGAGGGCAGGGACAGAGGTAGGAGGTGGTGTCTGAGAGTGGACAGGGCGGGCCACCCAGGGCCTCGTGGTGCACAGTGAGCAGTTTGGAACTGATTCTGGGAGTGACAGAGGCATTGGAGGCTTTTAAAGAGGGGAATCACTAGGTCAGCTGCTGGCTGGGGAATGGGCCCCGGGCTGGGAGGGGTGGAAGCCTGGGCCCAGCGGGGAGGCCCCAGTGCGTGAGGAAGTCGATGGCTTGAACAGGATGGGGCAGCTGCTATCAGGAGGGAACGGAAGTGGGGAAGAGCTCCAGCCCTGGGCTTCAGACCTCCAGAAGCAGCAGGAAGAGGGGTGATAACAGTGTCCCTCCTTGCTTCGGGGTCATTTATTTATTCATTCATGCATTCACTGCAAGGCCCTTTGCACAGGTCAGGGGATGCAGATGACCAGAACATAAGATCTGCAGCAAAGATGGGCAAGGCAGGCCTTTAGGCAAGTTACTACAGTCACACGAAGGACAGGAGAGCTGTGATCACAGAGCTCAAGGGGCAGTGGAGATGGGCGAGTGGCTGCCATGGCAGGGGAAGGGATGCTGCCCACTGGCAGGTCATCAGGAAAGGCTGTTTTTGGATGCATGGACCAGAAAGCCACTCTCTGAGGTGGCCCCCACCTGCATCATCCTAGGGCCACAGGCCGAGGCCTTCTGAGGGGCCTTGGGGCTGCCCCGCTGCTCTGCTGGTCTTGGCTCCTCTGCAGCACCTGCTTCCTTTAGCACTGGTGAATGATTCTTCCTCTTCCCCTGTCTCAGGGAAGGCTTGCCTGCTTCCATGCTTGCATGCTGGGTGACAATAAAGCATTCCTGGTTCTTCACCTTGGCTTTCAGACCTGAAACCCGACTTCCTTTCAAAATTCCTGTCCTCGGGGGGAAAAGGTTTCCACAATGTGAGATGGTAGCCTGGACACCAGCTGTCATCATGTTGCTGCTCTAGCGTTTGAGCTCCCGATGAACAATGACCATTGGGTCCAACCAGCCCTTTTGGGAGCCCCCTTCTCTGTTACTGCCCCAGGGGGAGCCAGAACCCAGCAGGGCTGTGACTCCAGCGAGCAAAATGGAACTCCCTCCAGTTTCTAGACTGAATTATGTAGGGAGGACAGAAGGACTCAGAACCCACACTCCCAGACCATGAATACCTTCCCGTGGCAGAGCATCACCATAGGTGTCCACAAGTGACGACGCACAGCCACATGAGGGGGTCCCTGGGGACTGGCTGAGGGACTGGGCCAGAGGAGGCCATGACAGCCTCATCCCTCTGTCTCCTTCTGTCTGTCTCCAAATTGTCCACCAGAATGGGGACAGGGAAGGAGGGTCAGGAAGCACAGAAGGTCTAGGCTGTGGCTAGGGTCCCTTTCCCTGCCGCAGCCCCCAAATCAGCATCCCACCCTCAAATCCAGTAAGAATGCTACGATCGGCAGTGTGGCTCCCTCCCTGCAGGTTTCACTGGAGGCCACGTAAGTGAAATTTATCCCATTATGTGTGTTTTGATGTAGCAGGACCTTACCAGTTTTTTTTGTTTTTTTATTTTTATTTTTTTTGGTTTCTTTTTTGAGATGGAGTCTTGCTGTGTTGCCCAGGCTGGAGTGCAGTGGCACAATCTTGGCTCACTGCAACCTCCACCTCCCGGGTTCAAGTGGGAGCCTCAGCCTCAGCCTCAGCCTCAGCCTCCCGAGCAGTTGGGATTACAGGCACCTGCCACCATGCCTGGCTAATTTTTGTATATTGAGTAGAGGCGGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCATGATCTGCCGCCTTGGCCTCCCAAAGTTCTGGGATTACAGGTGTGAGCCACTGTGCCTGGCCGGCCTTATCAGTTTTTATGTAATTTGTCCTGATTTAAAAAAAAAAAATCACATGCGGGTAAACTCAACATATTTTAATTTCTCTTTAGAGAAATTTTCCACTTGAGCCAGGTATGGTGGCTCTTGCCTGTAATCTGAGCTACTCGGGAGGTTGAGGTGGGAGGATCACTTGAGCCCAGGAGTTGGAGGCTGCAGTGAGCCATGATCGCACCATTGCACTCCAGCCTGGACAACAGAGTGAGATCCTGTCTCAAAAATTAAAAAAAGCAGTAATTTTTTCTTCTCAAGTCATTCTTTTAAAATAAATCAAAAGTATTTTAACAGAACAATCTGTTCCTCGTTGATTTTAAACAGCCCCCCAGCTAAGTCCACTGGTTGTCGGTCTCCATGGCCCATCTCCCCACCTTGCTTCCTCGCTGGCTTAAATTTTCAAGTGGACGAGCCCTTTTCAGCTTGGCTTGTCCACCTCCCAGGTGTGTTTCCTGAAGATGCTTGTACTTATGTCTAAGAGCGGCAGCTCCCCACATCTCAGCCACCTGCAATCGTTGAGGGTTGTTGGACTCTAAACTTATGTGCCTTTCCTGTTTCCTCTTTGCCTTTTGCAAATTGAAGAACCGTGTAAAACCATTTTTATGTGGCTTCAACGTCAACTATAAATTAGCTTGGTTATCTTCTAG
Seq C2 exon
GAGAAATGCTATTTATTTTGGAGTAGTAGTAAAAAGGGCTCAAAGGATAAGGAGGCCATTCAGGCCTATTCTGAATCCCTGATGACATCAGCTCCCAAGGGCTCTGTGCTGCAGGAAGCAAAACTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000073060-SCARB1:NM_005505:11
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0113016=CD36=PD(10.2=93.9)
A:
NA
C2:
PF0113016=CD36=PD(2.7=27.9)
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)