BtaINT0132402 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013857 | SH2D3A
Description
Bos taurus SH2 domain containing 3A (SH2D3A), mRNA. [Source:RefSeq mRNA;Acc:NM_001205669]
Coordinates
chr7:18952167-18957932:+
Coord C1 exon
chr7:18952167-18952243
Coord A exon
chr7:18952244-18957450
Coord C2 exon
chr7:18957451-18957932
Length
5207 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CCCTCTTGTATGACCCCCAGGAG
3' ss Score
7.93
Exon sequences
Seq C1 exon
GGATAGGAAGCGGAGTGATAGTCAGCCCGCAGGTTTGGAGCATATGTGGCGGTCACCAGAAGACCCTCCTGGACCAG
Seq A exon
GTAAAGGGTCTTCCAGAATAGGACATAGCTCCAAAACTCCTCTGCCACGCACTATCCAAGTGACACTGGGCAGGTGACAACCTGCTGGGAAAAAAGGATGGTGATGCTCTCGATGTTGTCACAGTGACTAAAACACATACAAGAACTCTGTAGGTGCTTAAAAGTATGGGTTTACAATGATTCCAAGAAACCCTCCATGCTCTAACCATAGCTAAGCTCTCTAATAATTCCATCCCTCATCCCCTGTTCACTCTGGCCACACAGACATCCTTTCAGTTGCTGATTGTTGTTGTTCAGTCTGCTGGAACCTTGTACATTTGTTCCTGCCTCAGGGCCTTTGCACTTGCTGGCCTCATCTTTGGAAAGCTCATTCCCTAACCTTTACCTGACTGTTTCTCATCTAACAGGAGTTCCTCAAAGCAGCTAACCCTGGCCATCCTACATAAAGGAGGAGTTCCCCTTGTGCCCTGACTGGCCTGTTGTCTCCCATTCAACATGAGCCCTCACTGTGTGTGTCAGAAACAATACTAAGTGCTGAGACACATCAATGAATAAGAATAACAAAGATCCCTGCTCGAGTGGAGCCAACATCCTATTAGAGAATGAAGGACCATGAACAACAGAAATGAGTCATATTTGTTGTTGTTGTTCATTTACCAAGTCGTGTCTGTGATCCCATGGATACAGCATGGATACATGGATACTCTGTGATCCCATGGATACAGCACACCAAGCTTTCCTGTCCTTCACTATCTCTCAGAGTTTGCTCAAATTCTTGTCCGTTGATTCAGTGATGCTCTCTAACCATCTCATCCTCTGTCACTCCCTTCTCCTTTTGCTTTCAATCTTTACCACCACCAAGGTCTTTTCCAATGAGTTGGCTCTTCCCATTAAGTGGCCAAAGCATTGGAGCTTCAGCTTTAGCATCCATCCTTCCAGTGATTATTCAGGGTTGGTTTCATTTAGGATTAACTGGTTTGATCTTCATGCTGTCCAAGGGACGCTCAAGAGTCTTCTCCAACACCACAATTTAAGAGCATCAATTTTTTGGCACTCAGCCTTCTTTATGATCCAACTCTCATGTCCATACATGACTACTGGGAAAATCATAGCTTTGACAATACAGACCTTTGTCAGCACAGTGATGTCTCTGCTTTTTAATATGCTGTCTAAATTTGTCATGGCTTTCCTTCCAAGGAGCAAGCTTCTTTTAATTTCATAGCTGCAGTCACCATCCACAGTGATTTTGGAGTCCAAGAAAATAAAATCTGTCACTCCTTCCACTTTTTCCGCTGCTGTTTGCCATGAAGTGATGGAACCAAATGCCATGATGTTTGTTTTTGGAATGTTGAGTTTTAAGCCAGCTTTTTCATCCTGCTCTTTCACCCTCATCAAGAGGCTCTTTAGTTCCTCTTCACTTTCTGCCATTAGAATGGCATCATCTGCATATCTGAGGTTGTTGATATTTTGCCCGGCAATCTTGATTCCAGCATGTAATTCATCCAGCCCAGCATTTCACATGATGTACTATGTATATAAGTTAAATAAACAGAGTGACAATATACACTTCTTTCCCAATTTTGAACCACTTTCAGTAAGATTATAACTGTTGCTTCTTGTCCAGCATACAGGTTTTTCAGGAGACAGGTAAGGTGGTCTGGTATTCCTGTTTTTTTAAGAGCTTTCCACAATTTGTTGTGTTCCACACAGTCAAAGGCTTTAGCATAGTCAATAAAGCAGAAGTAGATGTTTTTCTGGAATTCCCTAGCTTTCTCTATGACCCAACGAATGTTGGGGATTTAATCTCTGGTTCCTCTGCCTTTTCTAAACTCAGATTTTCTATCTAGAAGTTCTCAGTTCATGCACTGCTGAAGCCTAGCTTGAAGGATTTTGAGCATAACCTTACTACCATGTGAAATGAGGGCAACTGTATTGTAGTTTGAGCATTCTTAGAGAAGGAAATAAGAACCCACTCTAGTATTCTTGCCTGGAGAATCCCATGGACGGAGGAGCCTGGCAGGCTACAGTCCGTGGGGTCACAAAGAGTCGGACATGACTGAGCGACTTCACTTTTGAACATTCTTTGGCATTGCCCTTCTTTGGGACTAGAATGAAAACTAACCTTTTCCAGTCCTGTGGCCACTGCTGAGTTTTCCAAATTTGCTAATATATTGAGTACAGCACTTTAACAGCATCATCTTTTAGGATTTGAAATAGCTCAGTTGGAATTCCATCACCTCCACCAGCTTTGTTTGTAGTAATGCTTCCTAAGGCCCACTTGACTTCACACTCCAGGATGTCAGGCTCTAGGTGAGTGACCACACCATCATGGTTACCCGTGTCATTAAGACCTTTTTTTTGTACAGTTCTTCTGTGTATTCTTGCCACCTCTTCTCAATAGCTTCTGCTTCGCTTAGGTCCTTACCGTTTCTTTCCTTTATTGTGCCCATTCTCGCATGAAATGTTCCCTTGATATCTCAATTTTCTTGAAGAGATCTCTAGTCTTTCCCATCCTATTGTTTTCCTGTTTCTTGGCATTGTTCATTGAAGAAGGCCTTCTTATCTCTCCTTGCTATTCTCTGGAACTCTGCATTCAGTTGGGTATACCTTTCCCTTTCTCCCTTGCTTTTCACTTCTCTTCTTTCCTCGCTATTTGTAAAGCCTCCTCAGACAACCATTTTGCCTTCTTGCATTTCTTCTTCTTTGGGATGGTTATGGTTACTGCCTCCTGTACAATGTTACAAACCTCTGTCCATAGCTCTTCAGGTACTCATGTCTATCAGATTTAATCCCTTGAATCTATTTGTCACTTCCACTGTATAATCGTAAAGGATTTGATCTAGGTCATACCTGAATCAGAGAAGGCAATGGCAACCCACTCCAGTACTCTTGCCTGGAAAATCCCATGGACGGAGGAGCCTGGTAGGCTGCAGTCCATGGGGTCGTGAGGAGTTGGACACGACTGAGTGACTTCACTTTCACTTTTCACTTTCATGCATTGGAGAAAGAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACGGCGGAGCCTGGTGGGCTGCTGTCTATGGGGTCACACAGAGTTGGACACGACTGAAGCGACTTAGCAGCAGCAGCATACCTGAATGGCCTAATGTTTTTCCCCTACTTTCTCCAATTTAAGATTGAATTCTGCAATAAGGAGCTGATGATTTGAGCCACAGTGAGGTCTAGGTCTTGTTTTTCCTGACTGTATAGAGTTTCTTCATCTTCTGCTGCAAAGAATATAATCAATCTGATTTCCATATTGACCATTTGGTGATGTCTATGTGTAGAGTCGTCTCTTGTGTAGTTGGAAAAAGGTTTGCTGTGACCAGCATATTCTCTTGACAAATCTCTGTTAGCCTTTTCCCTGCTTCATTTTGTACTCCAAGGCCAGACTTTCTTGTTATTCCAGGTATCTCTTGACTTCCTACTTTTGCAACTCCCTATGATGAAAAAACATCTTTTTTGGTGTTAGTTCTAAAGGTCTTGTAGGTCTTCACAGAAGGGTTCAACTTCATCTTCTCTGGCATTATAGGTTGGGGCATAGATTTGAATTACTGTGATGTTGAATAGTTTGCCTTGGAAACGAACCAAGATCATTCTGTCATTTTTGTGATTGCACCCAAGTGCTGTGTTTCAGAGTGTTTTGTTGACTGTGAGGGCTACTCCATTTCTTCTAAGGGGTTCTTGCCCACAGTAGTAGATATAATGGTCATATGAATTAAATTTGCCCATTCTTGTCTATTTTAGTTCACTGATCCCTAAAATGTTGATGTTTACTCTTGCCATCTCCTGCTTGACCACATCCAATTTACCTTGACTCATGGTGTGCTGCAGTTCATAGGGTCACAAAGAGTTGGACAACCTTAGCGACTGAACAGCAACAACAAATGGATCTAACATTCCAGGTTCTTACACAATATTGTTCTTTACAGCATTGACATTTACTTTCACCACCAGGCACATCCACAACTAAGCACCATTTCCCCTTTGGCCCAGCTGTTTCATTCTTTCTGGAGCTATTAATGATTGCCCTCCACTCTTCCCCAGTAGCATATTGGATACCTTCTGACCTGAGGGGCTTATCTTCCGGTGTTGTATCTTTTTGCCTTTTCATACTGTTCATGGGGTTCTAACAGCAAGAATACTGGAGTGGTTTGCCATTCCCTCCTCCAGTGGACCACTTTTTGTGATAACTCTTCACTGTGACCCGTCTATCTTGGGTGGCCCTGCACGGCACGGCTCATAGCATCATTGAGTTATGCAAGCCCCTTTGCCACTACAAGGCTGTGATCCATGAAGGGGAGTCAATTATGCTTTGGGTTAAAAATTAAAAGTAGGACAGAGCAAGGAGTATTACAGTTTTTAGTAGTAGTTAGGAAATTTTCTCATGGAGAAATACTTGAAGGAGATGAGGGAGGGAACGATGTGGATAATGGGGTGAGAGTGGCCCAGACAGAGAGAACAGTCAGAGCAAAGGAACTAGAATCAGAACAAGAGTCTGAACTGTTCATTGAACCAAAAAGAAGTGAGTGTAGCAGAAACAGTGGGAGTGAGATGGAAGTCGGAGAGATATCAGGCTCAGATTGTGAGAGCTTTGAGGGCTAACAAGAGGACTTTGGTCCTTATTCAGAGTGAGATGGGAACATTAGGGAGGTTTTAAACCCCCATAACAGGGTTGACTTAAATGTTTAGTAGATATAGTCTCCCAAAAGTCTGTGCGCAGTTTTAAGTTAATAACCTCAGAAGTAAATATACCACAAACTTAACAGAAGACATCATTCGAAAGTTTGATAAATTCAGTTTCTTTGAGGCATATGTAACTTTGTGAATTTTGAGTGACATATTTTTTCATTTCAATTTTGTGTGGTCAGTGCTTACCATCTTCAATCAGAGGAGCAAAAAGGAAGAGTTCAGACTTAAAATGTAGTATTCAGAATTGGCAGAACTACATCCATGTCAGAGAAAGTTCATTTTCAGACCATTGGTAGGTATCTAGCATCGATGTTGGTGAAGCTGTTCAGCCTCAAAGCTGCAACAAGGTAACTTAGGATACCTGCTTGTTGGCTGAATGAGTGCAGGAACCAGGAGGTTGGTAGCTCAGGAAGCCATCACCCCAGCCAGCTATCTTCTCTGTGTACCTCTTTCTCCCCCTCTTGTATGACCCCCAG
Seq C2 exon
GAGCCTCCACTGTACCTGCATCTGGCCTGCCTCGGACAGGTAGTGACCCCGTGATACTAAAGACCCCAGTTCCCTTGGGGTCCGTTGCTGACAGTCTCAGGGCCTCTGATGGGCAGCTTCATGCCAAGGCCCCAACCAAGCCACCTCGAACACCCTCATTGCTACTGCCTGATGCCTCTGGACGCCCCCCGACGTACTGTGAGCTGGTGCCCCGAGTGCTCAGGTTCCAAGGACCACCCCCTGGCCACAGCTGCCCAGAGTCAGAGGTGCCCTGGTGGGAAGCCGAGGAGGAGAAAGAGGAGGACAGATGTTTTGCAAGACCACAGGCTGAGGTCTCTTTCTGTCTCCCTGACACCCCCTCCTGCCTGCTGGGCTCCCAGAATCGGCCTCTGGAACCCGAAGTCCTGCATACTCTCCGTGGCCTGTTCCTGGAACACCATCCTGGGAGCACAGCTCTCCACCTGCTATTGGTAGACTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013857:ENSBTAT00000018405:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.547
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
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]