HsaINT0145447 @ hg19
Intron Retention
Gene
ENSG00000073060 | SCARB1
Description
scavenger receptor class B, member 1 [Source:HGNC Symbol;Acc:1664]
Coordinates
chr12:125262174-125267357:-
Coord C1 exon
chr12:125267229-125267357
Coord A exon
chr12:125263133-125267228
Coord C2 exon
chr12:125262174-125263132
Length
4096 bp
Sequences
Splice sites
5' ss Seq
TAGGTGGGT
5' ss Score
5.56
3' ss Seq
AGCTTTGCCTTTCTCCACAGGGT
3' ss Score
11.12
Exon sequences
Seq C1 exon
GAGAAATGCTATTTATTTTGGAGTAGTAGTAAAAAGGGCTCAAAGGATAAGGAGGCCATTCAGGCCTATTCTGAATCCCTGATGACATCAGCTCCCAAGGGCTCTGTGCTGCAGGAAGCAAAACTGTAG
Seq A exon
GTGGGTACCAGGTAATGCCGTGCGCCTCCCCGCCCCCTCCCATATCAAGTAGAATGCTGGCGGCTTAAAACATTTGGGGTCCTGCTCATTCCTTCAGCCTCAACTTCACCTGGAGTGTCTACAGACTGAAGATGCATATTTGTGTATTTTGCTTTTGGAGAAACTGCCCTTCCTATGTTCTGAGTGAATAGCAGTTTTTTTGATCCCAGAGGGCAACTTGTATTCTGTGGGCTGGTGCCTATTTGCAAGGTCACATTAGAAAGACAGGAGCAAGGCTTAGGCCTGCTGCTTCTGGAATCTCTTGTGCAATAGACTCCCCTGGGGAAGTCTGCTAGAAATGCAGATCCCTGGGCAGCCTTCTAGCCTTCTGGAATAGGATCATGGTGGGACCCTGGAATCTGTATTTTAATGGACCCTAATGAGATTCTGATGTAGAAACATGTTTGAGAGGCATTGATCTAAATCTGGGATGACTGGCCAGGTGCGGTGGCTCACACCTGTAATCCAGCACTTTGGGAGGCCGAAGCAGGTGGATCATTTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAAACCTGTCTCTACTAAAAATACAAAAAAAATTAGCTGGGTGTGGTGGCACACGCTTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGATGGAGGTTGCAGTGAGCCAAGATCGTGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACTCCGTCTCAAAAAAATAAAACTAAAATAAATAAATAAATAAATACATCTGGGATGACTGACCAAGAACAAAGAATGTAGGCATCAACTGAACACCAACTGTATACCTGGGACTGGATCTGAGGGTAGGATTGCCAGATTGAGCACAAACAAACAAACGAAACACAAGAAACAACAGAAGGGTGCCTGTTAAATATGAATTTCTGGTAAGCAATAAGTAATTTTTATTGTGTTCCTGTGCAATGATAGGACGCACGTATCCTGAAAACCTGTCTGTAGTTCACCTGAAATTCACATTTAACTAGGCGTTCTGATTTTATGTGGCCGCCCTATCTGCTGGGAACATAGGCTGATGCCCCTGGGGGTTCTGCGTTTCCTTGGCCAGGTTCCTGTAGGGCTGAGGTCATGGGGGAGCCGTGGCCAGGGATGGTGTCCTTGCCAGGGGAGGTGACGGGCAGAGCTGCAGGCCCTACAACTTGGGGTTGGGCAGGGATGAGTCGCTCTACCGTGGTGCCTCTGATAATAGCTGTTATTTTAGTTTCTGAAAAATGTGCTGCCCTCAAGAGCTTCTGAGGCTAGGCCTACTTGGGTGAAAATAGCTTTCCAGGGAGCCACATTGTGGGGACGTGAGGCAGCAGCCCCACTCTTTGGGGCCACTTGGCTGTCTCTAACTCATCTCACTTGCCAGGGCTGGACAAGGAGATGAAAAAGAAAATGCCAAGGGGTGGGCAGGCAGGAGCCTGTTGGCGTTGGCAGGCGCTGCCAGCCCTGTGTCCCAGTCAAGCTCTGGGGCGCCCTTCCTGTCCATCTGGGAGTAGGGGGTGGAGTCTGACCATGTTGGGGTGGAGTGTTAATATTAGGAGAGGATCCTCCCTGGGACAGGGTCCCCAGGCTTGGGGGCAAGGCCTTCTGCCTGGACCCCCTTCCTTTCCTCTCTCCCAGGATTCCTCCAGGACACCGTAGTGCTGTGCACGGTTTGGCCCCATCGGTGTGCCTGCTCCTTCCAGCCACTGCTCCCTTCTGCAGAAACTTGCCTGGGATTCCCAGGGTGCAGGGGTGGGGGCTGGTCAGGGGCTGGTCAGGGCCTGGTCAGTGTAGAGCAGGGAGCTTTTCACTTTTAGCATAGATAGAGTGGCCAGGGCCCCATGGCTGCACCTCCCTGGACATAACCAGGATGTCCTGTCATCTGCCCCCCAAACAAAACTGGGGTCTCCCCTTTATTTTGCCAACAGAATCCAATTTTTAGGTGATGAGACAAGTGTTTGACTTGAAAAGACCCTCCTGCCCTGCCTCCTGGAAGGTCTGGAGCCCAGCCCAGCGCCCCGGATCCCCTAGGCATGTGAAACGGGGAATGCAGTGTCCTCCAGTGGCTGGCTGCAGCTTGGGGTGGGCACCTGGGTGGTGGCTGGTGGTCCCCCTGCAGGCCACTGCTGCCCCCTCTTGGGTCCTGTTCTGAGTCTCAGGCCTGAGTCCCTGGGGAAGGCCCCACACCTTTGCCCTGTACCTGGGTATGGGGATGGCCCTGAGGGGCTGCCTTGCTTGGGAGAAGGGGGGAAAACAGATATTTTTATATAAATAAGAAAAAGACAGCCCCTCTGGGCAGATGAGGCCTGCTGTAGGGCAGGGGGCTTGGTAAACTGTGTGTCCACTGGTCTGTAACCCTTCAGCTGGGTCCTTTTGTGCAGTGAACAGCCTGGACAACTGTCCAGGTGGCCCTTCAGGGATATGTTCCTGGACCTTTCTTAGCTTCTCACCGATCTTTCTTCCACGCCAAGTCCATGTTCCTCAGTCAAACAAGTGGCAAAGAGGAGGAGGAGGAGGGGAAGGAGGAGGAACCTGCTTCACCCTCTGGCACCTGCGGGTTTTGTTCCACGTGTCTTCCTTGGGAAAGACAAGGGGTTCTTTTACAGCCTAGGGGTGGTTTCCCCTTTCTACTTCTGAGTGAGACCTTCTCAAGTCACGGCTCTTTGGGCCCACATGGCTAAGGTCTAGCCACCTGTGGGTGTCCTGTGCTGCCTCAGTGGGTGGTGTGGGGGCGGGGCTGACCTCCCCCGCGCCTGGCTCAGTGCAGCAGACCCTGGCCCCTGTGCCCGCTCTCTGCCCTGAGCAGGAGTTTGATTTTCCTACCCCGTGGTGAAGCAAGCACAGGTGGGCGGAGGTGGGCAGCGGTTTCCAGCCCCAGCCACCGGGGCAGGGAGGCCTCTGTTGCTCAGGGCAAGGGAGGCAGGGGGCTTAGTGGGACGAAGGCTCACCCCACACTCTTATCATTAGCATTATCTGTATTTTTAATTTTTAAGTTGAGAAATTTTCTACAACTGTCAAACTAGACAAATGACAGTATCCAGTTCCCCTCACCCAGACGCAGCCATTGCTGACAGCTGTCAGTGTTGAAGATGGCCAGCATCTCATGCCCTTGGTTTCACTCGTTCCCTGGGTGGCCCTCGTCCCCCTCCCCACGTCCTGCGCCCCGCATACCCTGAGCAGCCATGGCCAGGAACTTGGCACGTGGGTTTGTTTTTTCTGAATCTGCATGTGCGCAGCCATGAGCATGAGGTCACTTTTTGAATGTGACCGAAGCTGCATCCTGCTGCGTGTATTGCTGTGTGGCTGGCTTTCCTCCCTGTCTTCTGTTCAGGAATACTGTTCAGGCTGAATACCGTCCTGTGACATGGGTTTAAAAACACAGGCCAGGCATGGTGTCTCACGCCTGGAATCCCAGCGCTTTGGGAGGCTGAGGTGAGAGGATCGCCTGAGCCCAGGAGTTCGAGACCAGCCTGGGCAACATAGACCTGATCTCTACAAAAAATTAAAAAATGAGCCGGGCGTGGTGGTGGCACGTGTCATTGTCCCGGCCACTTGGGAGGCCGAGGTGGGAGGATCACTTGAGCCCAGGAGTTCAAGGCCGTGGTGAGCCATGATGGCACCACCGTACTCCAGCCTGGGCGACAGAGAGAGACCGTCTCTAAAAAATAAAAAATAAATCAACACATAAACATACGTTCTCCTCCTGAGGGACAGAGCTTGCCCCGGTTGTTCCATGTTGACTGTGCTGCACACAGGCCGCCCCCCTTGCTCTGCCCCTCACTGTATTAAGTCTCTTTGGGCCTCAGTTTCTCCATCTCTAAAGGAGGTCGGGGAGGCCAGGCGGGTGTTGAGTGAGATGAAGAGGCCCTTGGAGTCATTCCAGGAGTCTATAGGTGACTCCAGTCTCTTCTCACTTCTGACAGCCTGGTGGCGGGGGTGGAGTCTCTGCTGGGGATGTGGGTACAGGGCTGTGGTGGGCGGGGATGAGGGTGGGGTTTGGTGACAGGGCGTGGGTGGTCACCCAGCTTTGCCTTTCTCCACAG
Seq C2 exon
GGTCCTGAGGACACCGTGAGCCAGCCAGGCCTGGCCGCTGGGCCTGACCGGCCCCCCAGCCCCTACACCCCGCTTCTCCCGGACTCTCCCAGCGGACAGCCCCCCAGCCCCACAGCCTGAGCCTCCCAGCTGCCATGTGCCTGTTGCACACCTGCACACACGCCCTGGCACACATACACACATGCGTGCAGGCTTGTGCAGACACTCAGGGATGGAGCTGCTGCTGAAGGGACTTGTAGGGAGAGGCTCGTCAACAAGCACTGTTCTGGAACCTTCTCTCCACGTGGCCCACAGGCCTGACCACAGGGGCTGTGGGTCCTGCGTCCCCTTCCTCGGGTGAGCCTGGCCTGTCCCGTTCAGCCGTTGGGCCCAGGCTTCCTCCCCTCCAAGGTGAAACACTGCAGTCCCGGTGTGGTGGCTCCCCATGCAGGACGGGCCAGGCTGGGAGTGCCGCCTTCCTGTGCCAAATTCAGTGGGGACTCAGTGCCCAGGCCCTGGCCACGAGCTTTGGCCTTGGTCTACCTGCCAGGCCAGGCAAAGCGCCTTTACACAGGCCTCGGAAAACAATGGAGTGAGCACAAGATGCCCTGTGCAGCTGCCCGAGGGTCTCCGCCCACCCCGGCCGGACTTTGATCCCCCCGAAGTCTTCACAGGCACTGCATCGGGTTGTCTGGCGCCCTTTTCCTCCAGCCTAAACTGACATCATCCTATGGACTGAGCCGGCCACTCTCTGGCCGAAGTGGCCGCAGGCTGTGCCCCCGAGCTGCCCCCACCCCCTCACAGGGTCCCTCAGATTATAGGTGCCCAGGCTGAGGTGAAGAGGCCTGGGGGCCCTGCCTTCCGGGCGCTCCTGGACCCTGGGGCAAACCTGTGACCCTTTTCTACTGGAATAGAAATGAGTTTTATCATCTTTGAAAAATAATTCACTCTTGAAGTAATAAACGTTTAAAAAAATGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000073060-SCARB1:NM_005505:12
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=0.897
Domain overlap (PFAM):
C1:
PF0113016=CD36=PD(2.7=27.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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)