BtaINT0007979 @ bosTau6
Intron Retention
Description
Bos taurus zinc finger protein 177 (ZNF177), mRNA. [Source:RefSeq mRNA;Acc:NM_001102550]
Coordinates
chr7:15343476-15346774:+
Coord C1 exon
chr7:15343476-15343663
Coord A exon
chr7:15343664-15344534
Coord C2 exon
chr7:15344535-15346774
Length
871 bp
Sequences
Splice sites
5' ss Seq
GAGGCAAGT
5' ss Score
3.32
3' ss Seq
ACTTACTCCTTTTTCTGTAGGCA
3' ss Score
9.25
Exon sequences
Seq C1 exon
ATGGGGCTACTCAACTTAAATCAAAAGATGTAATTCTCATGCAGAATGTCCCTGGAGAAAAAACTGCCAATGGCATAAAAATGGTGAGATTCACTAGAAATGATTCCTGTTTTTTAAGACTGGGAGATCTCTGTGAATTTCAAGAAATTAAAACAGCAGCAGCACCCAAGCAAGAGGAGACACTTGAG
Seq A exon
GCAAGTAGAATCATTCATCAGAAAGCTGCATCAGGAAATCCTTTATTAATCCTATAAAATTGGAGAAATCTCCAAACCTACCTCAACACTTGCAGCCTTGCAGAGAATATCAAAAAGTAAACATTTACTTGAGCTTCCCCGGTAGTGCAATGGTAAAGAATCTGCCTGCCAAGGCAGGAGATGCAGGTTCAATCCCTGAGTTGGAAAGATCCCCTGGAAAAGGAAATGGCTACTCACTCCAGTATTCTTACCTAGGAAATCCCATGGACAGAGGAGCCTGGTGAGCTACAATCCATGAGGTCACAAAAGAAACACAACATAGCGACTAAACAACAGCAACAAACATTTACTTAAATGTCATTCCACTATTAAGTATTTAATAAATCATTCATTCTTCACCCATGATTAGAAAAACTCTATAATTAGGATGCCCTTTGATAGAATAAATTCCATGGGGCCTTGGGAAGAGTATTCAGCTATTTCAACTTGAAAGAATAAGGCAAAAAATATACACACATCCTGAAAATGGCAAAAATGTTAGTCATAATAATATACTTCCTATATATGGCAGGATCCACATGGAAATGAGTTCCTGTGTAATAAAAGTGAGAAAGCCTTTGTGCATGTTAAGTCACTTCAGGCATGTCAGACTCTGTGCAGACCCTATGGACTGTAGCCTGCCAGGCTCCTCTGTCCATGGGATTCTCCAGGCAAGAATACTGGAGTGGGTTGCCATGCTCTTCTCCACGGGATCTTCCCAACCCAGGAATCAAACCCAGGTCTCCTGCATTGCAGGCAGATTCTTTATTGTTTGAGCCACCAGGGAAGCCCCAAGAAGGCCTTTAGTCATCACTTACTCCTTTTTCTGTAG
Seq C2 exon
GCACCAACCCTCCCTGGTGAGAAACCATTGGAATGTGATCACTGTAGAAAATTCTTCAGAAAGAATTATCACCTTATTCGTACAAGATATTGCAAGGGCAAGAAATGCTACAAATATAAAGAATATGGGAGAGACTTTGGCCATCCCTCAACTCTTAGGAATCATTTGTGTACTCACATTGGAGAGAAAATTCTTGAATTCAGTGATTGTGGAAAAACTTTTAATCAAGAGTCACCCCTTAGGAAACACTTCAGAACTCTCACAGGAGAAAAGTCTGAATGTAATCAACATCTTATATCCAAATTACACTCTTCCTTCTCAGTACATAAACAAATACCTACTGAAGAGAAACTCCATGAACACAGTGACTGTGGGAAAAGATCTTTCCATAGTGTCCACAAAAAAATGTGTACTGTGAAAGAAAGCTCAAAATGTAATGGACATGGGAAAGTTTTCACTGGCCCCTTGTCCCTTCAGATATGTTTGAGACCTCATACTGGAGAGAAAGCTTATGAATGTAGGGACTGTGGGAAAGCCTTTGTTTTTCAATCTTCCCTTAAGAAACACGTAAGATCACACACTGGAGAGAAACCTTATGAGTGTAATCACTGCGGAAAATCCTTCAGCCAGAGCTCTCACCTTAACGTTCATAAAAGAACTCACACTGGAGAGAAACCTTACGACTGTAAGGAATGTGGCAAGGCTTTCACTGTTCCTTCATCCCTTCAGAAACATATGAGAACCCATACTGGCGAGAAACCCTATGAATGCAGTGACTGTGGGAAAGCCTTTATTGATCAGTCATCCCTTAAGAAACATACCCGATCTCACACTGGAGAGAAACCTTATGAGTGTAATCACTGTGGAAAATCCTTCAGCACAGGCTCTTATCTCATTGTGCACAAGAGAGCTCACACTGGAGAGAAAACCTATGCATGTAAAGAATGTGGGAAGGCCTTTAGGAATTCCTCTTGCCTAAGAGTGCATATGAGAACTCATACAGGGGAGAAGCCTTATAAATGTATCCAGTGTGGAAAAGCATTCAGCACTAGCACTAACCTTATCATGCACAAGCGAATACATACTGGGCAGAAGCTCTGTGAATGAAATGACTACAAGCTAGCCTTAAGGGCCCCTTCCCCCCTCAGTCATTTTTTAACACACTCTGGAGAGAAACCATATTATGACCAATTTAGAAGGCACAACTCTTCAGTTACATTATACTGGGGCAAACGTAAATGTTACGATTCTGTGATTGTATTTATCAGTGAGTGTTTAAAGTGTGACAACTCATTAGCTGATGAGTATTAAAGATTATATAGCACTCTAAATTCCCCTTGATGTACATCACAAAGATTTTTTTAGTATTTATTTATTTATGTATTTATTTGGCTACAACAAGTCTTAATTGCAGCATGTAGGATCCTCAGTCTTTATTGTGGCATACAAGATCTTTAGTCACAATGTACAGTATCTAGTTCCCTGACCAGGAATTGAACCTAGGTAGGCCTTCTGCATCAGGAGTGTGGAGTCTTAGCCACAGGACCACAAGGGAAATCCCTCACTAAAGTTTAGGTATGTAATGTTTTTATTATAAGTAAGTACTAAGTATTGTGCATTTCTCATCAAGATATCCTGGACTGAACTATAGGTTCTTTATAAATATGTATTTTAATGTGCAGGCTGGGCATATTTTAGCTATCTTTTAGTTATAGATTCCTAATTGAATTGCACTGTCCACAGAATGCCTGATCTTCATGACATAGATCAATAACATACAAACAGAAAATTATTAGAGACTTGCTATGTGGCCTAATGTGTGAGATACAAGAAGTTGCTGTCCCAATATCCATTTCTCCCTTCCTTCAAGTAACAAAACTACAGTTGTGTTCAGATTAGCAGTGTAGACAATTTCTGAGGACTCATCTCCCGGCTTTTCTTGCAGCTGTGAGTGCCCATGACCTCACAGTCTTGGCCTGTGAGAAAGAAGCAAGAGGTCACAGCTTGTGGGTTCTAAAGAATTCCATGGAAATGGGAGCATGGCATCTGGCATTTTCACTTTACCATCTGCCCTCAGGTTAATCTCTTTTTCCTTAGAGAATAGACCAATAAGATGACAATCATAGACTACTGATTATATAATAGACATGTAAGGTATTTTTTGGCTGTATATAAGCAACTATGAGTTGCTTGTTTCTGAATTTCATGTAACATGAGAAAAATAAACTCCTAACTGGTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039493:ENSBTAT00000056477:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.043
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=5.1),PF134651=zf-H2C2_2=WD(100=7.0),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=7.0),PF134651=zf-H2C2_2=WD(100=7.0),PF134651=zf-H2C2_2=WD(100=6.8),PF134651=zf-H2C2_2=WD(100=7.0),PF134651=zf-H2C2_2=WD(100=7.0),PF134651=zf-H2C2_2=WD(100=6.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGGCTACTCAACTTAAATCA
R:
AGAGTTGAGGGATGGCCAAAG
Band lengths:
342-1213
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]