BtaINT0025277 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003245 | BCAR3
Description
Bos taurus breast cancer anti-estrogen resistance 3 (BCAR3), mRNA. [Source:RefSeq mRNA;Acc:NM_001024483]
Coordinates
chr3:50040494-50044047:+
Coord C1 exon
chr3:50040494-50040622
Coord A exon
chr3:50040623-50043601
Coord C2 exon
chr3:50043602-50044047
Length
2979 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
CTCGCCGTTCTGTCCCAAAGGTG
3' ss Score
8.93
Exon sequences
Seq C1 exon
TTCTCCAAGGAGAGGCACGTCATGGACAGGACCCCCGAGAGGCTGAAGAAGGAGCTGGAGGAGGAGCTGCTGCTGAGCAGTGAGGATCTGCGCAGCCACGCCTGGTACCACGGCCGCATCCCCCGACAG
Seq A exon
GTACCCGCCCGCACACAGGGTCATGTGCCCAGGGCCATTAGGAGCAAGCTCCAGTTCAGCCCAAATGAAATAATATGAAGTGGCTTGCGGTGACTTAACGTAGGCCCATTTCTAAGGAGATCTTGGGAAGAGCTAAGGTCAGGAATTCAAAGTCCATTTGCCTGTGGCCAGTGAGGGGATGAAGGAAAAGCAGGTGTTCTGTGGTCTGTAAACACGGGCCCAGCGGGAGGCAGCCATGCAGGGTGGCACCTCGGGGAGTATGAGGGCGGGCTGTGGTTCAGCTAATTGAACTCTTGGCCAGCTGCCTGCAGCCTCATACCCTGTGGAGCCTGCTTCCTTCTTAAGGCCGTGGTTTAATTTCAGGTGAAAAGAGGGTATCATCAGGGCAGGTAACCCAGAGAAATAGGCCGCCTGTGCCCTAGTGGGGCCGGCAATTATTCATTCTCTACCCTTGCCCCATCCGGCCCCTGGCCCAGAAATAGGGAAGAGGAATTATACCAGCGACCACAGACATGGCCAGACAGACTCATGGCCAGACAGACTCATGGCCAGAATATACTTTGTGTGATTGTCTTTTGGGTCATAGCCATGAATAATGTTTTTGTATTTAATAGTATAGAAATTGAAAAATAAGTGCAGAATTGAGGTATAGAATTTTCCTTGAGTTTTTATTGTAACATGATCCGACCAGTCAGTCACTCAGGACCACAGGACAGGAAAGGGGGGGTGGGGGAGGGGCATCATATTGTGAATGGGTTTGTTTTGTTTTTAATGTAGCAGATTCTCAGCACCATCAAAGAAATAATTCTTATTTCAACTTTGTTTTTCTTCTTTGAGCTTAAAATTGATGATAGAAAATAGAATTAAAAAAGGAGCAAATTAAACTCTCACCCATAATTCTCCCTTCTGGAGATAACCACTATGAATATTTTGATATAAATCCTGCCAGACTTTTCCAAATCAAGCTTGAGCTCATTTTGCCTATAACTTAGCAGCCCACTTTCTTCCCGTAATGATGTAACCTGGGAATTTTCTCCTGCTATGAAATGTTCTCAGCCAGCCCCCATTGTCTGCATCCATTGTATGTTTGCTCCGCTCTGTATTGGGCACTCTCCCAACACCCTTTAAGATAACTACTGTGTTCATCACTATCATCATTTCCTCAGGCTCACTTCCAAGAAGTGGAATTTCTGTGTGAAAACATTTTTAAGGCTAAGATGCAATTTTAAGGTAACCATGGTAACATACTATTCTGAGCTAGCTGATCAAATGTTGGCAGGTCCTGGAAAACTTGTCAAAGTTTATAAATCTGATATCTGTCATCACCATCATTCTCCTTATCATAATCATAAAATTTGTTTCCCACTTGCCATGAGGATAAATTTTCAGCTATACATCATCTAGATTGTATATCTAAAGACTGTAACGATAATAATGATCGTTGTAGTTAACTCTGAAGGGCTTCGCTGGTGGCTCAGATGGTAAAGAAGCCACCTGCAATGCAGGAGACCTGAGTTCGATCCCTGCATTGGGAAGATCTCCTGGAGAAGGGAATGGTTACTCACCCCAGCATTCTTAACTAGAGAATCCCATGGACAGAGGAGCCTGGCAGGCTATATCGTCCATGGGATTGCAGAGAGTCAGACACGACTCTGACTAACACATACATAGTTAACACTTTACTCCTTTAAATTTTTATAGCTACTCTGTAGGAGATATTATCCTGGTTTACAGATGATGTAATGGAGTGTAACTTGTACACGTAACTTGTCTCACAGAAGAGCCAGAATGCAAACCCAGGCAGACTAGCTATGGGAACAACCATTCTATGACACAGTTTAAATTCTCCTTTTGTTACCAACTTCAGTATCCTTATAGCTAATGATTTTTTTAACATCTACTATGTTCCAGTCTCTGTGCTAGTGCTTTGTGTATATTATGTGGCAGTGGTTTAGTTGCTAAGTCGTATCCAACTCTTTGCGAAGCCATGGACTGTAGCCTGCCAGGCTTCTCTGTCTGTGGGGATTCTCCAGGCAAGAATACTGGAGTGGGTAGCCATGCCCTCCTCAAGGGGATCTTCCCAACCCAGGGATCAAACCTAGGTCACCTGAATTGCAGGCAGATTCTTTACCAACTGAGCCACCAGGGATGCCTCGTATATTATGTATACAAATATATAACCTTCCCAATAACTCTGTGGGATGAGAGACTGGCCACTTTGTTCCAGGCCCACAGAATAATCGTTGTGCCCAGAGCCACCCTCAGAGGTCTAGTTCTACTGTCCCTGGCTTCCACCTGCATGCAGACCCTCCTCCTCCCCACCCACCAGGCCTGGAGAGGGGTTCCTTTGGAGAGGGCTCTGAGGATGACCCATAGATGACAACCAACATCCTCCTCCAGGTGTTGCAGGGAGAGAAAGAATCAGACCCACCAGACACAAATTTAGTTTTATCACTTCACATCCTTCAGGTCTGCATAGATGTCATCTTCTCCTGATACCCTCCTAACCACCATATTTAAAAGGTCAGCCCCCATCCCAATTTACTTTTTCCTTAACTTTACAACATCTGACATGGCATACCTGTTCCTTTTTTGTCCTACTAGAATAGAAGCTCTCCAGTGAAAACAGAAGCTCTGAGCCAGTGGAGGCTCAGCTTCATTCACTATATAAATGCAGTGCCTACAGCAGTACTTGGCACACAGTGTTGCTGTTCAGTCATGTCCGACCCTGCAACCCCATAGACTGCAGCACGCCAAGCTTACCTGTCCTTCACCATCTCCCCGAGCTTGTTCAAACTCATGTCCATTGAGTCGGTGATGCCACACAGTAGGTGATCAACAAATAGTTCATAAGTGAATGAATCTTCTCAGAATTTGACAAAATAAAGAGCCGACCGAGGAAGAGGAGACATTATAGCCTTGTCCGTAGTGCAGCTAAGCTTGCCTTGCCTGTTCCTCACTCGCCGTTCTGTCCCAAAG
Seq C2 exon
GTGTCAGAAAACCTCATGCAGCGAGATGGTGACTTCCTGGTTCGTGATTCTCTGTCCAGCCCGGGAGACTTCGTCCTGACCTGCCAGTGGAAGAACCTCCCTCAGCACTTCAAGATCCGCCGGACGGTGGTGCGGCTCAGCGAGGCCTACAGCCGCGTGCAGTACCAGTTTGAGATGGAGAGCTTCGACTCCATCCCTGGCCTGGTACGCTGCTATGTGGGCAACCGGCGGCCCATCTCGCAGCAGAGCGGAGCCATCATCTTCCAGCCCGTCAACAGGACGGTGCCCCTGCGTTGCCTGGAGGAGCGCTACGGAGCCTCCTCCCCAGACCGGGCCCACGAGGGCAGCCTCACTGAGGGGAGGCCGGACGCGGCCAAGAGGCTGAGCCTCACTGTGGGCGGAACCCAGGCCCGAGAGCAGGGCTTGCCCAGGGGCAACCTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003245:ENSBTAT00000063777:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.093 A=NA C2=0.295
Domain overlap (PFAM):
C1:
PF0001719=SH2=PU(9.9=18.6)
A:
NA
C2:
PF0001719=SH2=PD(87.7=47.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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]