BtaINT0139326 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013740 | SP2
Description
Bos taurus Sp2 transcription factor (SP2), mRNA. [Source:RefSeq mRNA;Acc:NM_001015654]
Coordinates
chr19:39199852-39201650:-
Coord C1 exon
chr19:39201338-39201650
Coord A exon
chr19:39200027-39201337
Coord C2 exon
chr19:39199852-39200026
Length
1311 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
TGCCCCCGTCCTTCCCATAGGAC
3' ss Score
12.69
Exon sequences
Seq C1 exon
GTCTACATCCGTACGCCTTCTGGTGAGGTACAGACGGTCCTTGTCCAGGACAGCCCCCCAGCAACAGCTGCGACTGCCTCCACCACCACTTGTAGCAGCCCCGCGTCCCGTGCTGCCCATCTGAGTGGGACCAGCAAAAAGCACTCGGCTGCAATTCTCCGAAAAGAACGACCCCTGCCAAAGATCGCTCCTGCTGGGAGCATCATCAGCCTGAACGCAGCACAGCTGGCAGCGGCGGCCCAGGCCATGCAGACCATCAACATCAATGGTGTCCAGGTCCAGGGCGTGCCCGTCACCATCACCAACACTGGCG
Seq A exon
GTGAGGGAAGGCCCCTGGGCCGGGGTGTGGGCAGCATGCCTGTGCATCCCACACATGGGCCTGATGTTTGCCTGGTCCCTTCCATCTCAGAAGCATGTTCCTTGGTCCTTATGGCAGCTTTGTGAGATAGTTTAAGACACATGTTGGCCCTTCCAACAGCTAAAGACCTTGAATATGATGGCGAGCATAAGATGCACTCAGGAAAACTTTCCAGCTAACATATGCGTACAAAATAGTTTGGTGCAGACCAAAGACATGTTCAAGGGAGGCTCTGGGTAAAGGTACTTGAAGAAAAGCCTTGACTTAAGGTTGATAGAAGAGAAGGGAGCCTTTGGTAGCAAGACTGGCTTGTATGGCACTCAGTTCGGTGGCAATATTTAGTAATATCTTCAGTATGAAAGCCACCTTGCAGCTAATAAAACACTAGTTACTGAGCAAAACTGGTTCATTGCATTCTTTAGCTGGGTGAAGGGCACTATTCAGAGTAGTTGAATCTGTCTGAATCTCCTCCCTTCATCCTTTCAAATGAATTTTGGGCACTTTACACCTTTGGTTTAGCAGCTGGGAGGAGTTCACCTGCAGGCACTCCCCTGCTTTGATGGCTTTGTGCAAGTCCTGGGGGACTTGACTTACTCCAGAGCGCAAGGCACTGTCTCTCCCTCTATGAACAATAATTCCTGGATGCTTTTCTGGGAGCAGAGTTGGTGTCTCACAAGGATCTAAAGCTGGAGGAGATTCTGGGAAAGCGTTTCAAGATAAGACCCAGGTGGGCAGTGTCTGGAAGTGACTTCAGCCTGTGTAGCATGGTGGTTCTGGGCATTGACTATGAAGTTGATGACTGGGTTCAGAGCCAAGTTCTACAAGTTCTGGCTGTGTGACTGTGAGCCTCAGTTTCTTCATCTGTAAAAGGGGATGGCAGCCCACTCCAGTATTCTTGCCTGGAGAATCCCAGGGGCGGGGGAGCCTGATGGGCTGCCGTCTATGGGATCGCACAGAGTCGGATACGACTGAAGCAACTTAGCAGAAGCAGCAGCAGTACCTATTTCATGGGCTTATGAAGCTTCAGTTCAGTTCAGTCACTCAGTCGTGTCCAACTCTTGGCGACCACATGAATTGCAGCACGCCAGGCCTCCCTGTCCATCACCAACATTTAAGATCTCTAAAATGGTATCTGGCACACAGCAGGCTGAAAACTGTTAGCCACTATGACTCTCAACCTCACCCTGTGCAGGAGGCCAGACAGGGGTCAGGCTCCCTCCTCTGCACCTTTCAGCTTCCTCACCCTGAACTCTGCCCCCGTCCTTCCCATAG
Seq C2 exon
GACAGCAGCAGCTGACTGTGCAGAATGTATCTGGAAACAACCTGACCATCAGTGGGCTGAGCCCCACCCAGATCCAGCTGCAGATGGAACAGGCCCTGGCTGGAGAGACCCAGCCTGGGGAAAAGCGGCGCCGCATGGCCTGCACGTGTCCCAACTGCAAGGACGGGGACAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013740:ENSBTAT00000064585:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.581 A=NA C2=0.441
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGTGGGACCAGCAAAAAGC
R:
GTCCTTGCAGTTGGGACACG
Band lengths:
356-1667
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]