BtaINT0139328 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013740 | SP2
Description
Bos taurus Sp2 transcription factor (SP2), mRNA. [Source:RefSeq mRNA;Acc:NM_001015654]
Coordinates
chr19:39194570-39199627:-
Coord C1 exon
chr19:39199434-39199627
Coord A exon
chr19:39195794-39199433
Coord C2 exon
chr19:39194570-39195793
Length
3640 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGC
5' ss Score
5.61
3' ss Seq
CAGGCATCTCCTCTTCCCAGGGG
3' ss Score
6.66
Exon sequences
Seq C1 exon
GTCTGGAGAGCAGGGCAAGAAGAAGCACGTGTGCCACATCCCCGACTGCGGCAAGACCTTCCGTAAGACGTCCTTGCTGCGGGCTCACGTGCGCCTGCACACCGGCGAGCGGCCCTTTGTCTGCAACTGGTTCTTCTGTGGCAAGAGGTTCACACGGAGCGACGAGCTCCAGCGGCATGCCCGCACCCACACAG
Seq A exon
GTCTGCTTCCCTCCCCTGCAGCGCCCTCCAACCCACCCCATGTCAGCTCCCCACCAGCAATGTGGAGATTCCTGGCCTGGCCACGGTACTGCTCCACTGAGCGCAGGGTACAGACTGCTTCTCCAGTGCAGGACTACCCGGGAGGTTCTCACAAGCCTTGCCTTTTTCACAGTGTTTCCCACAGTGAGGTCACTTGCACTGCATGCCTTGATGACTTCTGCCACAGCTGCATAGTTATTTAACAAGCACTGTGCCAAGCATGTTTTTGTGGTTGTTGTTCAGTCTCTAAGTCATGTCTGACTCTTTGCAACCCCATGGACTACAGCACGCCAGGCTCCTCTGTCCTCCACTCTCTCCAGGAGTTTGTTCAGATTCATGTCCATTGAGTCGGTGATGCTATCTCACCATCCCATCTTCTGTTGCCCTCTTTTCCTTTTGCCTTCTATCTTTCCTAACATCAGGGTCTTTTCCAGTGAGTTGGTACTTTGCATCAGGTGGCCAAAATATTGGAGTTTCAGCTTCAGCATCAGTTCTTCCAGTATTCAGGGTTGATTTCCTTTAGGATTGACTGATTTGATCTCCTTGTAGGCCACGGGACTCTTAAGAGTCTTCTCTAGCATCACAATTTGAAAGTATCAATTTCTTGGCACTCAGCCTTCTTTATAGTCCAACTCTCACATCTGTACATGACTACTGGAAAAACGATAGCTTTGAATAGATGGACGTTTGTTGGCAAAGTGATGTCTGTGCTTTTTAATATGCTGTCCAGATTTCTTTCCAAGGAGCAAGTGTCTTAATTTCATGGTTGCAGTCGCCATTTGCAATGACTTTAGAGCTCAAGAAAATAAAATCTGTCACTGCTTCCACTTTTTCCCCTTCTATTTGCCAAGAAGTGATGGGACTGGATGCCATGATCTTAGTTTTTTTTGAATGTTGAGTTTTAAGCCAGCTTTTTCACTCTCCTCTTTCACCCTTATCAAGAGGCTCTTTAGTTTCTCTTCACTTTCTGCCATTATAGTGGTATCATCTGCATATCTGACGTTGTTGGTATTTCTCCCAGCAGTCTTGATTCCAGCTTGTGATTCATCCAGCCCAGTATTTCATGTGATGTACTCTGCATGTAAGTTAAATAAGCAGGGTGACAATATACAGCCTTGTTGTACTCCTTTCCCAATTTTGAACCCAGTCAGTTGTTCCCTGTCCAGTTCTAATTGTTGCTTCTTGACCTGCATATAGGTTTCTCAGGAGACAGGTGAGATGGTCTGGTATTATCTTTTTAAGAATTTTTCCAGTTTGTTGTGATCCACACAGTCAAAGGAGTAGTAGTCAATGAAGCAGAAGTAGATTTTTTTTTTTTTTTTTGTGGAATTCCCTTGCTTTCTGTATGATCCAGCGAAGGTTAGCAGTTTGAGCTCTGATTCCTCTGTCTTTTCTAAACCCAGCTTGTAGATCTAGAGGTTCTTAGTTCACATATTGCTGAAGCCTAGCTTGAAGGATTTTGAGCATAACCTTGCTAGTATGTGAAATGAGCCCAAGTGTATGGTAGTTTGAACGTTCTTTGGCATTGCCCTTCTTTGGGATTGGAATGAAAACTGACCTTTTCCTGTCCTGTGGCCACTGCCTAGTTTTCCAAATTTACTGACGTATCGACTGCAGCATTTTAACAGCATTATCTTCTAAGATTTTAAATATCTCCTCACACCTGGAATTCCATCATTTTCACTAGCTTTGTTTGTAGTAATGCTTCCTGAGGCCCACTTGATGTCAGACTCCAGGATGTCTGGCTGTAGGTGAAAGATCAAACCATCATGGTTATCAGGGTCATTAAGATCTTTTTTGTATAGGTCTTCTGTGTATTCTTGCCACCTCTTCTTAATCTTGTCTGCTTCTGTTAGATCCTTACTGTTTCTGTCCTTTATCGTGCCCATCCTTGCATGAAATGTTCCCTTGATATATCCAGTTTTCTTAAAGAGATCTCTAGTCTTTCCTGTTCTGTTGTTTTCCTCTACTTTGCACTGTTCATTTAAGAAGACCTTCTTATCTCTCCTTGCTATTCTCTGCAACTCTGCATTAAGTTGGGTTTATCTTTCCCTTTCTCCCTTGCCTTTTGCTTCTTTTCTTTCCTCAGCTATTTGTAAAGCCTCTTCAGACAAGCATTTTGCCTTCTTACTTTTTCTTGGGGATGGTTTTGGTCACCACCTCCTGTACAGGTTACAAACCTCCGTCCACCCTCAGTCCTTCAAGCACTCTGTCTACCAGATCTAATCCCTTGAATCTATTCATCACCTCTGCTGTATAATCACAAGGGATTTGATTTAGGTCCTATTTGAATGGCCTAGTGGTTTTCCCTACTTTATTCAATTTAAGCCTGAATTTTGCAATAAGGAGCTCATGATCTGAGCCACAGGCAGCTCCAGGTCTTGTTTTTACTGACTGTATAGAGCTTTTCTATGTTTGTCTACAGAGAATAATATATAATCAGTCTGATTTGGGTGTTGACCATCTGGTGATGTCCATGTATAGAGCTGTCTCTTAGGTTCTTAGAAAAGGGTCTTTTGCTATGACCAGTGCGTGCTCTTGACAAAACTGTTAGCCTTTGCCCTGCTTAATTTTGTACTTGAAGGCCAAACTTGCCTGTAATCCAGGTCTCTCTTGACTTCCTACTTTTATATTCCACCCCTATACTGAAAAGGAGATCTTTTTGTGGTGTTAGTTCTAGAAGGTGTTGTAGGTCTTTATAGAACTGGTCAGCTTCAGCTTCCTCAGCATCAGCGGTTAGGGCATAGACTTGGATTACTGTGATGTTGAATGGTTTACTTTGGAAACAAGCCAAGATCATACTGTTGTCTATGAGGTTGCACCCAAGTACTGCATTTCGGGCTCTTTGTAGACTATGAGGGCTACTCTGTTTCTTCTAAGGAATTGGTTATCTGAATTAAATTCACTCATTCCCATCCATTTTAGTTCACTGATTCCTAAGATGTCGATGTTCAGTCTTGCAATCTCCTAGACATTTTCTCATTAACTAATTTAATTGCCATACGACTCGATGCGAACAGTACTATGATTTTGCCCATTTTCTGAGGCATGGAGCGGGCGCAGGGTCACATAGCCAGTGACTGGTGGAGCTGGTTCAGCCCAGGCCCTCTGGCTCCCAGCTTTCCTACTGTTATTTAACAAATGATTTTCCTTAAATCATTTCACTATTTTTACTCTTTTATGTCCAGTGAAGGATTAACTTTTCACATCACAGACTTGAGACCATAACTAAGTGTTTTAATGTACTGACAAATAAATACAAAACTATAAAGTAGAAAAATGTTCATCCATCTACCACTTAAAACCTGGCTGCCTCCAGTGGTCCACAGCACATGCTTTGAGAACTGCTATTCTGGCAGATGCTCCCAGTGAGCAGACACGTGGCCTGGGCCTGGGACGCGAGGCCAGTAGGAGGGGCAGGTCTCACCCACCCTCTGTAGCCTCAGAGTCAATACTCAGAACAGTAGCTAACCCAGCCCGGTTGGTGGGTGTGATTCGGGCTGTTAGTGCTCAGGCTGGCAGGTCAGAGGGGAGAGGGCTTTGAGCCGGGGTTAGGCAGAGGGACACATATCTGTGAGTGACAGGCATCTCCTCTTCCCAG
Seq C2 exon
GGGACAAACGCTTCGAGTGTGCCCAGTGTCAGAAGCGCTTCATGAGGAGTGACCACCTCACCAAGCATTACAAGACCCACCTGGTCACGAAGAACTTGTAAGGCCAACTGAGGCAGAGGCCCCACAGATGCAGACCTGCCTGGGCCTCTGGCAGAAAGGAGGCCCACGCTGTCATGGGCCCGCCTCAACCCCCGTTCCTATTGTGCGACTGTCCCCACAGGAAGGGGCTCTGCTGCCCCATATGCACCTCCTTTTGAAGCCCCTTGGCTCCGCCCTGGCCCTCCCCTCTCACCACAAGCTCCTGGCCTGCCCAAACCATGGACACTGGCCATGCCCAATGAGACGTTCTAAATCAGGACGAGTGGGAACCCTTATTTCCAAAGGAAAAACATGAATTTCACTCCGTCGAGGAGCAAAGTGAGCCCCCTCCCCCCAACACTGCCGGAGTCGCATCGTGCCATGCCCCCTCCCTCTCCTGTACCTCCCTGGCCCCGTCGGCCACTGCGGGCGCCTGGACGTCTGGGGCCCTGCACCCAGGGCTCCACTGGCAGCCAGTCCGCCTCCACTCCACACGCCCCACCCCACCCTGACTCTCCTCCAGCACATTCCAACTTTCTATTTAAAAGTAAAGCTACCCACCCACTCCCTGATCCCCCTTTTTCTATGGAGAGCGTTGCCTTATACTCTACTTCCGATGATGAACACTGTGTAGTGTGTGTGCTTTAAAGACGTTTATTTAATTGCTCCCTTCTTCCTGTCCTTGCTACTCACCTCCCCCATGCCTGCTTTTAGTTTAGGGTTTTTGGGGGGCAATGATGAGCATATGAATTTTTTTTCTCACTTTAGCAATTCTCTTTTCTAAATGACACAGCATTTCAACTCAAATCTGGATTCAGATGAAACACCTTCCCATCCTGAACCTCCTCCCTCTCCCCATCATCTCCCCCACCCTGACCAGCCCGAGCCCTACTTGTGTACAGTGTATATTGTATAATAGACAATTGTGTCTACTACATGTTTAAAAACATATTGCTTGTTATTTTTGAGGCTTTTAAATTAAAACAAAAATCCAACTTTATTTTTAGTTGTAACTGCTTGAGGTATGTTTTATGAATTAAGTGACAGATTTGTTATCCTTTATTAACGATGTACTTTGTTGGTCAGCGCTGGGCTGACAAAAATTTTTTCTTGCTAATAAATTTAGTTGCCTGAGGCAAAATCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013740:ENSBTAT00000064585:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=42.4),PF134651=zf-H2C2_2=PU(41.7=15.2)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(54.2=38.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]