BtaINT0000677 @ bosTau6
Intron Retention
Description
NA
Coordinates
chr22:16439129-16442510:+
Coord C1 exon
chr22:16439129-16439252
Coord A exon
chr22:16439253-16441059
Coord C2 exon
chr22:16441060-16442510
Length
1807 bp
Sequences
Splice sites
5' ss Seq
TGGGTAATG
5' ss Score
5.68
3' ss Seq
TTCTTCTGACTTGGCAGCAGATG
3' ss Score
3.16
Exon sequences
Seq C1 exon
GAGGCTGCAGAGTTGGAGTTCCTATCTGTGAACTATTCTCAGAAGTGGAAAGGTGCAGCACTCAGCCAGGGAGCCCTGTACCAGAACATCATGCTGGAAAACTGCCACAGCCTGGCCCCTTTGG
Seq A exon
GTAATGACTCTGCTCCCCAGTAATTTAGAGTCGGCCCTCTTTGCTAGGTTCTTATTCTTTTAAATTATGAAAATATAAAGAGACAAAGTGGGGAGAATAATAAAGTGAATTTCTCTATATCAACACCCACTATAATTATTGTTAACATTCTCTTTACTTCCTTATTAATTAAACTGGGCTGGTTTAATTAGAATTTGTAGTTGGACAGAATATAGAGCCACTCAATTACTGTCAGTCATGAGCTAAGTTACTTACAATAAGGCTGAAGGAATGGAAACCCGGAGCAGACCGACCAACTAGACCAGACTTTGGGAAAGAAAGCCTTGTAGGAGCCTAGGAGCCTCGCAGCAGAAGTGAAAGGATTTTCATGCCATTGTTTTCAGATAGCAGCACCCCACATATCTGTTTCCAATTGTCACTGATAACCATTTTCTTCACTCTGAATGTTTTTTTCTTTCTCTGAGCTCCTTAATTAGCCTTTCTGTTTCCTCATATGTTCTGGTTGCTGTGGCTCCTGATAGATTTTTTTCTCCATAGATCATTTCAACTTGAGCTCCTACTTCTAATTTCCTTCGTTTCCTACTTTCAGTTCATAATTAAATATCATCTTTGAGCAGAACTTTGTTCCAGGCTACCTGGAGCTGGTAACTACTCTACAGATAAACTATACTTGGGTTTGGTGTTTGGTCCTGGTCCAGTCACCTGTTGTCCATCCTCGAATGAGCTGAGTTGCTTGGCACAAGGCATGTTTGCCTCGGGTTCCCCTTCAGAAATAATGGGGCACGGCTGCTTCCAGAAAGTGGCTGTTGTCAGGGGAGGTTCTGGGGTTGACAAGTCTAAGACAGTAGCCTACTCTGAAGAGAATGGACTTAGAAGTCAAGGATTCAGACATCTGTAACTTGTACACACTAAAGTACTTGAAGATTTATACCCCTGATGTCGATGTGAGTGAAAGGAACCAACATTTTTTGTATTAAACTATAACTATGATTGCTCTGCCTTCTCCCACTATTATAAAATTTAAAAGCAAATATTTATTGCTTATTTTCCCATGATTCCTGATTATCAAGATACCAAAGACATGTTTGATTTATATTTCAAGTTATTGATACCAGTCTTAATTTTCTGTGTAGTACTGCACCTACCAGTCCAGTGTTCCAGGGACTAGGTCCCCAGGTTTAGAGCTCTGCTCTCCCCTTAACACTTTTCCTCAGTGTTTCTCTACTTGTGGCTTCTCCACACCCTGTCCCTGTCCTGTTACTCAAGAATCACTCCTTTTTTGTACACTTTTTTCCTGATCATACCCTTATAATATACATTTCTCTTCAACTCTCATGTTTGCCCACATCATTTCTTATATTTGGTTTAAAGTATTTACCACCACTCTCCTCAACATCTTTACTGTGAACTGTGGAGCCATATAGTGTCATGGTTGGAGCAGACCTGAGAGTTCATCGTTTTACTAAGGAGACACCACATCTAAGTGACTTCTGGGAGATGACACTGTGCTTTACAGTCTGATCTCTTGCCTTTCAATTGGCCTGCCCTCCTGGCTGTGCTGGCTCCACATGCCTCTGTTCTGATAGCTCTGCTTCCTCCCTCCTCTATGGACTGGCTTTCCCTCTTTGTTTTTCTGTCCATGAAGAAAAATTTGAGCCATTTCCAGTTTTTCTCCTGTTCTGAATGTGTCTCCTCATTCCTTACCCTCAGTGTGAATTTTTTGTTAGCTACATAGGCTCCTGATAGTTCCATTTCCCCAATAGGACAAGAAATGAATGACAGTTGTTTTCTTCTGACTTGGCAGCAG
Seq C2 exon
ATGAGAACAGGATGGTGCATTCACAGTTGCCTCCAAAACAGGACATTTCTGAAGAATTGAAGTCATCTGACAGGATCTTAGGGGTGTTCTGTGGAGTGATTCCTGCAGGACAAGAAGCTGGGACTGCCAGTAAAGAGGCTTCAGAGAATCTAGAAGTTCAACCCTCAGATGAAGAAGGAACCAGACTGGACAGTGATTTCTTAGAAATAACACAGGAGGATAAAAAGAAATCCACAGAGGATCAATATGATGATTATAAGGAACTTGGGGGACATCTAGATCTGTCCTCTAGTCTCTCAGAACATCAGGGAGTTCTGAAGGGACAGAAATTGTATCACTGTGATGAATGTGATAAAGCTTTTAATCGGAGTTCACACCTCATTGGGCATCAGAGAATCCACACTGGAGAGAAACCATATGAGTGTTCTGAGTGTGGCAAGACCTTCAGGCAGACTTCTCAGCTCGTTGTCCACCTCAGAATCCATACAGGGGAAAAACCTTATGAATGCAGTGATTGTGGAAAGACCTATCGCCACAGCTCCCATCTCATTCAACACCAGAGACTCCATTATGGGGAGAAACCATATAAATGTAATGAATGTGCAAAAGCTTTCACCCAGAGTTCCCAACTCATTGACCACCAGAGAACTCATAGCGGGGAGAAGCCATATGAATGCAATGAATGTGGGGAGGCCTTCATTCGGAATAAAAGCCTTATCCGCCATCAGGTACTTCATACTGGTAAGAAACCTTACAAGTGTGATGAATGTGGGAAAGCTTTCTGTTCTAACAGAAATCTTATTGACCATCAGAGAATCCACACTGGGGAGAAGCCTTTTGAGTGTAATGAATGTGGTAAGGCCTTCAGTCGGAGTAAATGTCTTATTCGACATCAGAGCCTCCACACTGGGGAAAAACCATACAAATGCAGTGAGTGTGGGAAAGCCTTCAATCAGAACTCTCAACTTGCTGACCATGAGCGAATTCATACTGGAGAAAAACCTTTTGAATGTAATGAGTGTGGTAAGGCATTCGGTCTGAGTAAATGTCTCATTCGACATCAGCGACTTCACACTGGTGAAAAGCCATATAAATGCAAAGAGTGTGGAAAATCCTTTAATCAAAATTCACACCTTATTATTCATCAGAGAATACACACTGGTGAAAAACCGTATGAATGTAATGAATGTGGAAAGGTCTTCAGTTACAGCTCCAGTCTTATGGTACATCAGAGAACCCATACTGGGGAAAAACCCTATAAATGCAAAGATTGTGAGAAAGCTTTTAGTGACAGTTCACAGCTCATTGTACACCAGAGAGTTCATACTGGAGAGAAACCCTATGAATGTATTGAGTGTGGGAAAGCCTTCAGTCAGCGTTCTACTTTCAATCACCACCAGCGAATTCATACTGGAGAGAAGCACTCAGGTCTGGCTCGATCTGTTTCTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003622:ENSBTAT00000023585:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.119 A=NA C2=0.203
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=88.1)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.0),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAAAACTGCCACAGCCTG
R:
TGTCCCTTCAGAACTCCCTGA
Band lengths:
356-2163
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]