GgaINT1024452 @ galGal4
Intron Retention
Gene
ENSGALG00000003018 | SCARB1
Description
scavenger receptor class B, member 1 [Source:HGNC Symbol;Acc:HGNC:1664]
Coordinates
chr15:4519689-4524576:+
Coord C1 exon
chr15:4519689-4519832
Coord A exon
chr15:4519833-4524158
Coord C2 exon
chr15:4524159-4524576
Length
4326 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTCTGCCCTCTCCTCTCCAGAAG
3' ss Score
10.15
Exon sequences
Seq C1 exon
AGTGGATACATTGATGGCTCAGTCCTATCGCAGTTTTACACCAACCTGGTGCTGATCCCATCCATCCTAGACTACCTGCAGTACATCTTCCTCGGGCTCAGCGTCCCGCTCATCATCTCAGCTGCACTCGTGATGATGAGTCAG
Seq A exon
GTAAGAACGTGCAGATATCAAATGGGAAGTGCTGTTAGTCAAATCACATTTAATCAGATGACAGAGATTGGGCTGACAATCTAACACTCCTGATGAAGCATTGGCTGATACCATGATTCTGTCACAACCTAAAGCAGAGCCATGTCCTAATGACACCAGTAGGTAACAGCAGGACTTCCTCAGCCATCAAGAAATTGGGCTGCAAATCAATGTTATAGAAGCAATTCTGGTCATCTTGGTGCACAGCAGTGACCAAAGCAGGTTCTCACGGGAGGAAGCATTTCTCAGCTCATCCAACTAACGAACAACCCTGGCTCATCAATCTCATTTCCATGTAAGGCATCAGGTCTGTGCCATCACCCAGAAACTCATTTATTTCTCTGCAAGTGCAGCTGTTCCAAATAGCTGTGGGAGTCAGGCCTGCAGGGATCTGTGGGTGAGAAGCCCCAACCTCTGAGGGCTGCAGGGAGCTGGCAGTGGGTGGGAGCAGTGCAGAGGCCTGGCTGCCCCGTCCATCTGAGTTTAAGGCTGTGGGGCCGACATAAAACAGCTCAGGCACTCAGTGGTGATCTGTCTCTGGCTGCAAAACACTCATCTGATAAGAGCTAAAGCTTTTAGAGACTTAGCATTGAAGTAGAGATCTAGCTCCCTAACCTATATCAAAGCAAGCTTATTGAGCTTGGCGTTACAGCCAGATGGCTTGAGCTGGCTCTAAAGCTGCAGATAAGAAGAGGCTGCTTGTGGGGATGAAAAGGCAGTGAAGAGGATGAGTGGGCTGAAGTGAGAGCACGGGTGAGAGGCTGCTTCTGCTCAACCTATAGCTACCCTTACTGAGATGCTAATACCAGCCCAATTTAAATAGCTCTGGAGTTTTCCAAGTACCGCATAATTGGATTTCTACCAAGCCTACAACTGCTTAATTGACTTAAACACATGATCCCAAATCCCCTTGTTCTTCCCTGTGCTACCTGGCAGTGGGGGAGCAGTGTGAGGTAGTGGGGCTCAGTGCTGACCCTTGCAGTGTTCCCAGGGCAGCTGAGCTCTGAGTGTGCCCACCCTCACTGCTCCAGCAACTGCAGGCAGCTGCAGGCTTCGTCGTACTGTGCAGCACCAGTGCGTCCCAGCACATGTTGGTGTTTCCTGGGGGGCTGTGTCTGAGAGCTTGGGCTGCCATTTCCTCGCCCTGCTTTGTGCAGGCTTCAGTTCCCAGTATCAAAGCCATGCTGGAAAGGGGTAGGAGAAAAGCTGCCTTCTCTGTTCACTTGAATCATCTGATCAGCTGCTTTTGAAATGTCCCGAACCCGGGCATGAGACAGCTGCATCTGGGTGCTCAGCCAGAGCCTCACCAAGTGCTAGAACTGAAATAAACCACGGGAAGCATCTGACTACCTGAAAAGTGAATCAATAGCCCTAATGGCTTTATAAATCTCGGAGGAAGCCATGCAACGACACATTAAATTCTGTGCCTAATGAACAGATAAGAGCTTGTAAACTGGAAGACAGCAATTTGCAGCCAAGGTGTGTTCCTCGATCAAAGTGTTGCTGATCTAGTGATGATTGCTAATCACACCCATTCCTCTCTCTGGAGGCCACAGGCGATGTCTGAGGGGCATTGTCCACACCTTCACGTGTCTGGCAGCGTGAAGCTCTTGCTTAACCTATGCCTTCCTGGTCTGTCTTGCATACCTCTGGCTTCCAGAGGGAGCAGTGGGCCATCAAACCAGTCCAGATGAGGTGCTGTGAAACACTCAAATCTTAGTCTAGTTTACATAAGAGCCAGTTTAGAATGTGTCTGTTGGTTCCACAGTTCCAAAAACATGCATGCCTCCTGTTTGGGTACAGCGTATGCCCAAACACAGTGTTAGGGCTCTCTGCTAATGCAGCTCAAAGCATGTGTAAGAAGACATTTAATGTGCAAACAGACCATTTTGAAACTGGCTCGGTGCTGATTGAAATCTTAAATAGGGCTTAGTTTAACCTAAATCTTGAAATCTTCCTTAATAGCTAGATTGTAGTTAAACAGTGATTGAAACTTCTTTAAAATCACCTCCTAAAACTGGACCCTCGTGCAATTCGTGTCGAAGTGCGCCATAAACGAGCCTGATTATCTTCTAGGAGAAATGCTCTTTATTTTGGAGTAGCAATAAAAAGAACTCAGACAGTAATAAGGCCGCCCAGGCCCCCCCTGCCGGAAAGCTGCCTCCGGTTAAGGTGTTGCGGGAAGCCAGACTGTAGGTGGGTACCCAGCCAAGGTAACACGTTCTTCTCTCATCCGGCGTTGATTGAACTTTGCTAAAAACCAATCAAATGGAAATGCTTGCTGTCCGTGTGTACTGGAGGATGTGTCCTCTTGGCAGCCTTTGACGCAGCCACGTTGTCTCCTGGCTTTATTCGGGACGATTTAGCTGTGTTAGTGCTAGCGCTTAACCAGGCTGCGAGAACACGCTCTTATTGCTGCTCCCTGCCTACCTGGTCTAATGGTATCAGCAAGGATTGGGGTAAAACGTAGGCGTGGTGTGAGGAGCTGCTTTTCTCACCTCTCCCCCCTGTGAGAGTTCGAGAGCTGCAGGTAAGTTTTCAGAGGGCCAAGCAGGGGATAACATGCACCCTGCTGGTGGGTTTTGCTTCCCTGCAAGGGCTTTCGGTGGGGAATATGATTCTTCAAATATCTGGGTTTGTATTACAGAAACACAAAATCACAGAATCATTGGAGTTGGAAGGGAGCTGTGGAGGTCATCTCCTGCAACCCCTCTGTTCAAGCAGGGTCACCTAGGCCTGCTTGCTCAGGTCCATGTCCGGGTGGCTCTTGAATCCCCAAGGATGGAGGTTCCCCCACTTCTGTGTGCAACCTGACCCAGTGCTTGGGCACAGGGTTTTTTTTTAAAAAAAGAAGAAATTAAAAAAAAAAAAAAAAAAAAGCATTTTCTGAGCTTCAGATCACAGCTGTGTTTCAGTTCGTGCCCATTGCCCCTTGTCCTGTCCCTGAACACCACTGAGAAGAGCATCGCTCTTTTGGGGTTTTACACTCTTCCTTCAGCCACTGAAATAAAGTAAGATCTCCCCGAGCCTTCTCCACTCCAGGCTGTATGGCTTCTTGGCCTCTCCTGTGAGATGCTACAGTCCTGTAATCATCTCGATAGTCCTGCTTTGGGCTCTGCAGTAGATCCACGTCTCTGTGGTGCTGGGGAGCCCAGAACGACTTGGAAATGGTACTTCAGGACTACAGCAGTGCTGAGCGGGGGGGGGAAGGATCACCTTGAGCTGCTGGCAGTGCTTCATCTAACGCAGCCCGTGGCTGCTGCTCCACACCTGCAGGACTTTGCACTTCTCCTTGCTGCTCCTGTTGTCCGTTTCTGCAGCCTGTCGAGGTCCCTCGGGGTGGCTGTGTGACCCTGTGGCGTATCAGCCACTGCTCCCAGCTTTGTGTCACCTGCTAGTTGCTGAGGTTGCACTCCGCCCCCATCATCTAGATCACTAATAAAGATGTTAGGTGTTAAACAGGGCTGGATCCAGCAGTGATGCCTGGGGTATGCTACTCGTTCCTGCTTTCCAGTAACTTTGGGCCATTGGGCAGTACAATCTATGAGTATCACATAGGAGATGGCATCAAAAGCCTTACTGGAGTCAAAGTTGGCAATATCCACAGCTCTGCCCTCACCTACCAAGCTGCTAATCATCACACAAAGTTATCACGTTGGTCAAAGGTGACTTTTCCTTGGTGAATCCGTGCTGACTGCCCCTGATGACTTTGTCCTTAGCGTGCCTGGAAATAGTTCCCAGTGCTTCCCAGGGATTGAGGTGGGGCTGCCTGGCCTGTAGTCCCCTTCTCTCGAAGATAGGTGCTGCTTTTTTGCCTGTTTGCTTGGCCAGGAGCAACTCATTCATCCAGGCAGGCCTCCTGGTTTTGTCTGTGTCCATGATAAGACCCTGTCTGTGTCACAGAACTGTTTGAGTTGGAAGGGACCCTTAAAGATCATCTATTTCAACTCACTCGCAATGAATAGGGGCACCTACAGCTAGAAACAGGGACTTGTACAGCTAGGAGGTGTGTGGGGCCGTGCAGCCTGCTGACTTACCACAGCTCCTCCGCCCGGGGACACGGCTCTACAGACCGGGTGTTCCTGGGGTGCTACAAGGACTGGTGGGCAGGACCAGAGATAATGTTCTGTTGGGGTAGGAGATGTAGAAGCATTCAGTTTGAGACTCTGTCAGGAAAGGATTCCTGGCCGTGCAGAAATCCAGGGCGCTGGGGACATGAGTACTGAGCATGACGCATGCTGTATGGTCTGTGCTGCGGGGTCGTAACCTCTGCCCTCTCCTCTCCAG
Seq C2 exon
AAGTCCTCCAAGGAGAAGCACCCACACGACCCCACCACGCAGAGCCCCCCACCCCAGCCCTCCGAGACCACACCGCTCCTCCAGGACACCGGCACACAGAGCCAGGACACCGCCGAGGCCTGAGCTTGGGATGGGAACTGCTTCAGATCACCACCAGTCTCCAGAAGGGGACGTGTCCTGGGCAGCCCCGTGGAGGCACAGCAAGCGCACGGCCAGGAAGGCCTTGTCCAGGAACCCAAAATGCAGTGTGTGTGGGGCCTCGGCCAGACTGCGCTCATCGCGGCCTTCTCCCCTGTGGGCAGGCAGGACTGGAAGCAGCTGCTGGCTCATCTGTCGTTCTGCAATGTAAAACTGCCTACTGCCAGGAATAAAAGGCACTTTAATAGGAGCCCTTAGAATAAATAAGGTTTGTATATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003018:ENSGALT00000004770:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.975
Domain overlap (PFAM):
C1:
PF0113016=CD36=PD(10.2=95.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]