BtaINT0129059 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014269 | SCARB1
Description
Bos taurus scavenger receptor class B, member 1 (SCARB1), mRNA. [Source:RefSeq mRNA;Acc:NM_174597]
Coordinates
chr17:53263825-53273723:+
Coord C1 exon
chr17:53263825-53263971
Coord A exon
chr17:53263972-53272785
Coord C2 exon
chr17:53272786-53273723
Length
8814 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
GCCCTGCCTTTTCTCCACAGGGT
3' ss Score
12.69
Exon sequences
Seq C1 exon
AGTGGAGCAATGGAGGGTGAGACCCTTGAGACGTTCTATATCCAGCTGGTGTTGATGCCCAAAGTGCTACACTATGCCCAGTATGTGCTCCTTGCCCTGGGCTGCGTCCTACTGCTCATCCCCATCATCTACCAAATCCGGAGCCAA
Seq A exon
GTAAGTAGTGGTCAGAGCATGGCCTGGGCTGAGTGGTCCCTTGCTTGCCTCCTTGGGGGAAGGAGGGGCTTAAATCAGATTCCCCAACTGTCCCTTCCTGCTGTGCCCATGGACACAGCCTGCACCCTCAGCCTGCACCCACTTCGAGCAGCAGTCCTAGGTCTCTACTTGGGCTGGGGAGCCATCCATCACTGCATCCTTGCCTTTCCTGCACCTTCTGTTACCACTTCTCTGCCTGTTCTGGGAGGCTAGGGGGCCCAACTTTAGAGGCACCGCAGTGGTTTTGGATCATGAGACCTGGTACTCGAATGGTTTGTTCATCTAGTCAGCAGCTGCTGGCTGCCAGGTTCTGGCAGGTACAGCGCGTACAACAGTGAACAAGACAGTTCCTGTTGATGGGCATGCGGGGACCAGCATTCTAGTTGGAAAGACAGGTGGGAGTCAAGTAACTAAACAGAAGAAGTGATTTCACCAATGATAAAGATGATAGAGAATGTGATGGGCTCAGGGCAGTGCTGTCCAGGACAGATACCACACGAGCCACATGTGTGATTTTAAATTTAAATGTTCTAATAGCCACGTTAGGTAAAAGGGAATTAATTTCAATCATATCTTTTATTTAACCTGGATATATCCAAAAGATTACCATTTCAATCTGCAATCAATATAAAAAAATTAAGTACTTTTGCATTATGTTTTTGAGTGCAGTCTTTGGAATCGGTGTGTATTTGACACTTACAGCAGATCTTGATTGGGACTCACCCCATTTCAAAGCCTCCACAGCCACATTTGGCTGCTAGACTGGGCGCCACAGTATCCAGGGAGGTTGGGGACAGTGATAGCAATAATGTCAGAAGAGGTTTCTCTGAAGAGGTTGAATTTAGGCTTAGATGTGAATGCTCAGCACAGAGTCATGGAAAGACTGCTGCAGGTGGAGGAATGGCCAGTGCAAAGGCCCTGAGGCAGGAATGGGTGGGGCTGTATTGGAGGATCCTGCCACACTAGATTGGCTGTAGGCGCAGCAGGGGAGGTGGTATCTCAGAGGCAGAGGTAGGTCATTCCTGGCCCTGTAACTCAGGGTGAGCGGCTTGGAACTGATTCCAAGGGATGACTGGAAGCTTTTAACTCATTATTGACTGGGGAATTTTTGCAGAAACAAATGCCTGTAGCCGGCGATTTTTATTTTGGCCAGCCAAAAATTAATTCTGTTATTTGACTGTGTGTAGGTTATTGCAATCAATAGTTACCCCTGACACACCTGTACAGTCTTCTCATTTTCATGAAATGTTGTCTTCAACCCACTCCTCTGTAGAAACAAAGGAGCATTCTCTAGCATCGTGAGTTCTGTTTTCACTTTCTGCATCAAAATCAATCACTAAGGTTTTTTGTCTCTTTGTTGGTCTAATATTCACATTGTCTGAATCAGAACTATGTTCTGTCTTCTGAGACACTAGTATATATGTTGTGCAGACAGTCAGAGAAAGTATCTGCCTAAAATTCACCAAAAAATTATTCTTCACTCAGAATTTCACAATGTGTCATTTTGGGGAAAATTTTACGTTTATAATATAAACAGGATTGGAACAAAAACCTTAATGAAGCAAACCGTGAGTGATAATGACAATCATAAGCTGTATAATGAGCCCTTAATCAATTTTAAGCTCTAACAACTTCGCATGGTGATGTTAATTGTATTAACGTGTTTTTTTTTTTTTTAAACATGTTAATTCACTCTCTAAAAACATGTTGATACGTCTCTGGTCAATAATAGGTTTAAGGAGAGGAGTGACTGGGTCGGTTGACATGTGGCAACTATTAATAGACCTTCCAATGAGAAAGCAGAAGCAGGGGGACCAGTGGGGAGGCCCAGGTGAGCTAGGATACTCTGGCTTGGACCAGAATGGGAGCAAGTATTCAGGAACAAGAGCCCTGAAGAACCAGTCCTGGGGCATCTGCCATTCAAAGTCTGGAAGAAGATCAGGGGACAACAAATACCCCCTTTCTTTTTTTCTTTTCTTTCTTCCTTGGTCTTTTTTTCCCTCTGCCTTGCGGCAGGGCATGCAGGCTCTTAGTTCCCCAACCAGGGATTGAACCTCTGCCCCCTGCAGTGGAAGCACATAGTCTTAACCTCTGGACTGCCATGGAAGTCCCAAGGAAAACCCCTTTCTGATTTGGCATCATTCAGGAATTCATTCATGGCATTAACTGACACTTTCACAGCTTATTTTGAGGGGACACTGCACAGTTTGGGGGGTATAGACCTGAATAGGATGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCCAAGTTTTCCTGGAGCCCCAGGCCTGGGCCTCGGAGGGGGGTTGCCCAGCTTCTCTGCTGCCCCCTCGGGCCACCTGCAACACCCGCTTTCTTGCTTTAGCTTTGGCAAACAGCCTTTTCTCTTTTGCCTTTTTCTCGGAGGCAGATTGCATGCTTGCTTGCTTGTTGGTAGCTGGGGCGATATTAAACCTTTCCAGGCTCTTAACCTGGGCTTTCAGACCTTTATCACCATTTCTCTTCCAAATTCCCCATCCTTCGGGGGAAAAGGTTTGCACTGATGTGAGGGTACCAGGGCCTCTGGTGTCTTGAGCCCCCAATGAACGTTGGGGACCCTGTCCTCTGTCACTGTCCCAGCCAGAGCAGAAGGGAACTCCCAGTGGTGTTTGGAATGAATTATGCTGGAGGACAGAGGGGACCAGAGGCCCTAGCCCCCAGTCTGTGGATGACTCCCCAGGCCCAGCATCACCGTGCGTTTCCAGGAGTGAAGACATACACAGCCACACAGGCGGGGGGTGGGGGTGAGGTGGACGGGGCCAGGGGAAGCAGCTGGTGAGGGCGGGGCCAGACAGCCCCCGCCCTCTGTCCCCTCTGTCTCTCTCCTAATGGTCTATTAGAAGGGGAAGGGGGAGGAGACTGAGGATGCAGGATGTGAACACTTCCCTGCTTCACCCCCCATCCTTGTTCCCCAAGTCCCATAAGATTATTCATCCTTTCTATTAATTATGGTGAGGCTCCCTCCCCACAGGTTATAGTGGAGGCTCAATCAATGAAATTTATCCCATTGTGTGTTTTGGACAGAGGAGCCTGGCAGGCTACAGTCTATGAGGTCGCAAAGAGCTGGACACAGCTGAATGACAAACACGTGTAATTTTTGGTTTAGCAAGGGTTAGGCCTTTTGTGTTTTTATATATTTCCCCTGGGGGAAAAAAAAAAGAATGGCACGTCGTTAAACTCAACATATTTTAATTTCTCTTCAAAGACGTTTTTTTTGTTCAAGTCATTTTTGAAAAAAAAATTGTTTTAAACAGAAACACCTCTGTTTCTGGTCTATTTAAAATGCCACCTGCTGGCTCAGTCAGTACAGCATGAAATTCTCCACATGCCACTTGCTCACCTCTCTGAGACTAGGCCGAGCCGCCATGAGCACCATAGCCCATCTGCCCTGCTCAACTTGGCCTAAATTCTCAGGCCGAAAGACCCTTTTTAGTTTGCCCATCTGACCAAATGTGTTTCCTGAAGATGCTGGTGTACGTGTCTTGGGTGAAGGGCACTATCACTTCCCAGATCTCCCAACTGCAAATCATTAATGGTGGTTGGACGTGAAAGTTCTGTACCCCACCCTCTGCTTTTTGAAGAACCCTGCAAATTGAAGAAACCTATAAAACCCGTGTGTGTTCAGCTGCGACGGCAACTATAAATTAGCTTGGTTATCTTCTAGGAGAAATGCTATTTATTTTGGATTAGTTTTAAAAAGGGCTCAAAGGATAAGGAGGCCGTTCAGGCCTATTCTGAATTCCTGATGACATCAGCTCCCAAGGGAACTGTACTGCAAGAAGCAAGACTGTAGGTGGGTACCAGGTAATGCCCCCCCACTCCCCACCTCCTCCCGTAGTGAGTAGAACTCTGGCACCCTTAAAGGCTTTGGATCTCATCCATCTCTTCAGCCTGCACTTCACCTGTCTACAGACTGAAAATGTGTACTTTGCTGTCTTCTTACATTCTGAGTGATCCCAGATGTGGTAGGGGATGGAGGGCGATTAGTAGGGCTGGTGTCTTATTTTCAAGTTTGTCTTAAAAAGGCAGGATCGAGGTTTAGGTCAGCTGCTTCTCAGACTTCCGGTGCAATTGACTCTTCTGGGGAAGTCTGCTAAAAATGAAGATCTGAGGACATTCTTCTAAACCTCCTGAAATAGAATCATGGACAGGCCCCGGGAATGTGTTATTTTAATCCCCTGGTGACTCAGTGGTAAAGAATCCGCCTGCCAGTGCAGGAGACGTGGGTTTGATCCCTGGGTTGGGAAGATCCCCTGAAGAAGGAAATGGCATCCTGCTCCAGCATTCTTGCCTGGGAAAACCCCATGGACAGAGGAGCCTGGTGGGCTACCGTCCATGGGGCCGCAAAGAGTTAGACACGACTAAGCGCACACGAACCAAGGGGATTATGAGTAGATTGGTCTATTTATTTATTTTTGGCTGCGCCCTGCGGAGTGTAGGATCTTAGTTCCCCAACCAGAAATCGAACCCACGTCCCTGTATTGGAGGCGTGGAGTCTTAGCCACTGGACTGCCAGGGAAGTCCCTGATATAGATTGGTTTAAGTGAATCTGGGATGACTGACCAAGGAAGAAACAATTTAGACATCACCTGGGCACCCAGTATATATCCAGGACTCAGTCTGAAGGTAGGATTGCCAGATTGAGCAAAAACAAACCAAAAAAACTCCCAAGAAATAACAGCAGCAAAGAGATGCTCAGTTAAATGTGAATTTTAGGTAAACAGTGAATGATTTTTTGCCTAAGTGTGTCCCATGCAATTGTCGGGACACGCTTATATTGAAAACCTGTTCGTTGGTTACCTGAAATTCACATTTAACGAGCTGCCCTCCCTGTATCTGACAACCTACCTGCAGAAGAAGTAGGCTGGTGCCTTGTGGGTTCACCTTCCTCTGGGCTGTGTTCCTTTAGGTCTGAGGTCTTAGGAGAGCTAAGTCCAGCCAGGGGAGGTGACAGGCAGAGCTCTTAGCCCTACTGTTGGGGTTTGGGCAGGAGTGAGTCAGTCGCACTATGGTTGTGCCTCTGATCATAGCTGTTATTTTGGTTTCTGAAAAATGTGCCGCCCTCGCCAGCTTCTTGGGCTGTGCCTGCCCGGGTTTAAATAGCTTTCTTCAGAGCTAAGCCTGAGGACGAGTCGACAGCCCTTCTCTTTGGGGCCAGTTGGCTGCTCCAGTTTGCTTCGACTGCCAGGGTTGGAGGAGGAGAGAAAACGGAACACGCCAAGTGCTGGCGTGGGTGTGTTTGCTGGCAGGCGCTGCCAGTCCCTGCGAGGAGCAGAAGGGAGGGACAGCTGTGTCCCCAGCCAGATTCTGGGGGGCTCCTCCTGCCGATCTGGGGATAAGAGAGCCCGACCACGTCAGGGCTGAGTGTTAAGGGGGTGTCCTCCTGAGCTTGGGAGCAGGACATCCTAGCCAGAGATGGGTACCCCGCTTTCCTTCCTCTCTCCCAGAATTCCTCTGGGACGCCTTCTTAGGTACAGTTTGGCCCCTTGGATACCCCTCCCCCTTCCAGCCAAAATTCCCTTCTGCAGAAACTTGTTTCGTGTTCTGGGGGTGTAAGGGTGAGGTCTTCCTAGAAGGGTGTTACTGGCTTTTAGCAAAGATAGAGCTGGTGATTGTGAGGTCTCAGCCCTGTGGCTATGCCTCCCTGGACGCAGCCAGGATATCCTGCCCACCACTCCCTGCCCCGCCCCCCTCCAAAAAAAATCCACACCAAACATTGGAGTCTCCTCTTGACTTTACCAACAGAATTCAAGCTTCAAGTTATCAGGGAAGGCTTTTTTTTTTTTTTTTTTAATCTTTTGCCCATACCACACAGCATGTGGGATCTTAGTTCCCTGACCAGGAATCGAACCTGCGCCCCCTACATTGGCAGTATGGTCTTATGGACCACCAGGGAAGTCCCAGAGAAGTTTTTGATTAAAGAGGTTCTATTGCCTTGCCTTCTGGAAGGCTGAGCCCAGATGAGACCCCTATCCCCAGTCATGTGTGCTTGGGGAAGGCAGTGTCCTGTTCATGCTGTTTTAGGGGGCCAGGCAGGCACCTGAGAAGTTGCTAGTGGTCCAGAAGACCTAGAATCCCTTCAGGGAAGCCTCTAACCTTTTTTGAACACCTGGGGGAGATCCCACACCTTGCCTTGCACTTGGGCATGGGGTGGCCTTTAGCTGCTAGCCCAGAAAGATGTCTTTATGTGAGTAAGAAAAATACAGCCCCTCTGCGCAGACATGGCCTGCTTTAGGACTGAAGGTTTAGAACACAGAATACAACCCATGTATAGCCCCCTTGGCTGAGTGCCTTTGTACAGTGATCAACCTGGACAACTGTACTAGGCAGCCCTGCAGGGCATGTTCCTGGATCTTTCTTACCTTCTTATGAGTCTCATTATTTCCAAGTCCTCATTCCTCAGTTAAAGGACAGTGTTAGGGAACAGGAGGAGGAGGAGGAATCTGTCTCAGGTTCTGCTTCCTTGAGGGTTTGTTACATGTGTCTTTCTTGAAAAAGCAGTTTCCCCTTTTCACTTAAAAAAAAAATTAATTGGAAGCTAATTACTTTACAGTGTTGTGGTGGGTTTTGCCATACATTCACATGAATCACCCATAGGTGTACATGTGTTCCCCATCCTGACCCTCCCTCCCACCTCCCTCCCCAATCCCATCTCTCAGGGTCATCCCAGTGCACCAGCTCCGAGCACCCTGCCTCATGCATTGAACCTGGACTGGCGATCTGTTTCACATATGATAGTATACATGTTTCAGTGCTATTCTCTCAAATCATCCCACCCTTGCCTTCTCCCACAGAGTCCAACAGTCTGTTCTTTACATCTGTGTCTCTTTTGCTGTCTTGCATATAGGGTCATCGTTACCATCTTTCTAAATTACATATATATGGGTTAATATACTGTATTGGTGTTTTTCTTTCTGACTTACTTCACTCTGTATAATAGGCTCCAGTTTCATCCACCTCATTAGAACTGATCACTTTTGAGCGAGGCTGTCTCCAGTCTTAGTTCTTTGGATCCACATTGCTGAGAATCTGCCCTCCACCCACCACCCCGACTGTCGCGTGCTGCCTGTATGTGGGAGTGTGGGTCAGCGGGGGGCACTGGTCTTGTTCTGACACCATACCCCCACCACCTCCCCTCCTTGCTCCTGGCTGGAATGTGGCTCAGTGTGGGTAGCCTGAGATCAGTCCCACAGGAGAGGAGCCGGGAGTTTCACCTTCCCCTTGGTCCTGCCCAGAGTGGAGTTTGATTTTTCCCCACCCCGCAGTGAAGCAGACCTCTGGGCTTTGTGCGCAAGGTCCAAGCGGGCAGGGGTTTTGGGGGTTTTCCAGCCACAGCTGCTGGGCAAGAAGGCATCTCTCTCCATTCTTCAAGGCGAATGAAGATAGAAGGCTTAGGGGGATGAAAAGTTACCCCAGTTTTTATTATCACAGCTTACCTTTAATTTTTTTTTTTTTGTTGGAGTATGATTGCTTTACTATGTTGTGCCAGTATCTGCTGTACAACCAAGTGACTCATCTATATGCATGCATATATCCCCTCCCTCCTGAGCTTCCTTCCCACACCCCCATCTCACCCGTCTAGGTCAGCACAGAGCCCCGAACTGAGCTCTCTGTGTTATGCAGCAGCTTCCCACTGGCTATCTGTTTTACATATGGCAGTGCCCACATCGGTCCTGGTGTCCCAGCTCGGCCCGCCCTCCCCTTCCCCTGGGTCCGCATGTCTGCTCCCTGCATCTGCTTCTCTATTCTTGCCCTGCAAATACGTTCATCTGTTCCATTTTTTTTCTAGATTCTACATACATGCGTTCATATACGATATTTGTTTTTCTCTCTGACTTACTTCACTCTGTATAACCAGCTCTAGGTCCATCCATGTCTCTTTAATTTCATGAAATTTCCTTAAATTGTGAAATTAAAAAAAAAAGTAAAGCTAGATGAACGACACCGAGTTCCCTCTCACCCAGACTCAGCAGCATTAATTGTTCACATCTTGTCCCAGTTCTCCATTTCACTGTGTGCCCTTTGCCCCCACCCCACCAAGCCCCACAGCCCCTCCCCCTATCCCAAGACAGTCATTTCTAGGAATTTGGTGTGTGCCTGTTTTCCCCTTCTAAATCTGTATCCATGAGCAACAGATCAGTTTTTGAAACATCTCTGGAGGACATGCTATGTGAATCACTCTGCAGCTGGCTTTCCCTTTCTCGATTTTCTGTTTGTGACAGCTGTGTAGGTTGACTACCACTTTGCGACTCTATGTTTTTGATGCATTATGATATCAGTGGACGTTTAGGCGGTTTCCAATTTTCCTGTGTCGACAGTATTGCTTATATAAGCCCTGAATACCTTGCTCTGCCCTTTTCTCTGTATTAGGCGAGTCCCTTTGGACCTCAGTTTCCCCATCTCTAAAATGGGGTGAGGGCAGGGCGGGATGGTGTTTCATGAGATGGGGAGACCCTTGCAGTTGCGGCCCAGGAGTCTGTAGGTCACTCCAGTCTTTTCTCATCTCAGGCTTGATTGGTGGGGACTGCTGATGGGGACTCCCAGGGGGGTTTCCATTCTGGTGGAGGATGTGAAGGGGCGGGGTGGGTTGTGGGCGGGGCTTGGCATGGGCGGGGCTTGGTGGCCGGCCTTAGTGATGCAGCGTGCCCTGCCTTTTCTCCACAG
Seq C2 exon
GGTTCCAAAGATGCCATCAGCCAGCCCTGTCTGGCCACTCAGCCAGACCAACTTCCCAGCCCCTACACCCCGCTTCTTCAGGACTCGCTCCGTGGACAGCCCACCAGTCCCAAAGTCTGAGCCCCCCACCTCCTGCACATTGCACGCACGCACGCGCACACACACACACACACACACATGCCCCTGGCACGTGTCCACACGTGTGCACAGGTGTGTGCAGATACTCAGGGATGGAGCCGCTGCTGAGAGACTTGGGGGAAAGACTGGTCAACAAGGGCTGTTCTGGAAACTTCTCTCCAAGTAATCCACAGGCCTGACCGTAGGTGCTATGGGCACGGGGTCCCCTAGCCCAGGCTCTTAGTGACTCACGTCACCTCTCCCCAGCGGCCCGCTCCATCTGTGAAACACTGCAGCCCCTTCCTGGTGGCTCATCCATGCAGGACAGGGCATTTGCCCTGAGAGGCCGCCACTGTCCCCAAATCCAGCCTAGGAGTGCTGACTTCTTGTGCCTGAACCTGGTGGGCAAGGTTTTGTGGTTCAGCACCCAGCCCGGACCAAAGCTGTAGCCACTGGACAGCCATCTGGGCCTCAGAAACGGAGATGCATCCTAAACCCCCTGCAGGATCATGGGTTTGGGTGTGCGGGTCCCTTCCCTCCAGCCTAAACTGACATCATCCTGTATACTGAGCTGGTCACTTCCTGACTGGGGTGGCAGGAAGCTGTGCCCTGAGCTGCCCCCCACCAAGGTCTGCAGCTACCAGGTGCCAGGGCAGAGGTAGAGAGGCTCCGTCTGGGACGTCAGCCTGGGTGTCTGGTCAGGAGACCCATCTGTCTGGGACTCCTGGTCTCTGGGACAAGCCTCTGTCTCTTTTCTACTGGAAGAAAAACTGAATATCATCTTTTAAAAATAATTCACAATTGAAGTAATAAACCTTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014269:ENSBTAT00000016321:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.103
Domain overlap (PFAM):
C1:
PF0113016=CD36=PD(10.2=93.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]
SPECIAL DATASETS
- Pre-implantation embryo development