BtaINT0007610 @ bosTau6
Intron Retention
Description
NA
Coordinates
chr18:60341615-60344819:+
Coord C1 exon
chr18:60341615-60341741
Coord A exon
chr18:60341742-60342541
Coord C2 exon
chr18:60342542-60344819
Length
800 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TTTCCAACTCTGTGTCATAGGAA
3' ss Score
8.17
Exon sequences
Seq C1 exon
GGACTGTTTACATTCAAGGATGTGGCTGTAGAATTCACTCAGGAAGAGTGGGAATGCCTGGATCCTATTCAGAGGGCCTTGTACAGGGATGTGATGCTGGAGACCTACAGGAACCTGCTCTCCCTGG
Seq A exon
GTGAGGAAAATGTCTCTGTTTGTAATTTTTTCCCATACAAATGTTCTCTCTGACCTTAGGTAACAAATTTCCAGAACATTTATTGTACACTATATATGTATATTTTTGCCATATAATTGTACTCCATGAAATCCCATAGTTGAGATTTCAGACAGTTTTCCTTAATTCTTAAACTTTATACATGTGTGTGTTGATCTGAGCCTGATATTTCAAAAGTCAGTGCTTCTCAAGATACTTTTTACTTTGCCTATCATGTGTTCCTTCTGGAATGAAAAAAAATTTTTTTGTACTTACTCAAGAGTCTTTTAGAATTCCAGAGACTATTATTTTGTATAATTGTGGTTATTTATTAACTTACTTGCTAGATTTATCTTTATTTATGAAAACGTATCAATTATTGTGATGTATAGATTTGTAAAAATATTTTTTCTTGCATCATGTTCACATGTGATTAAACAGTATTATAAAGATTAGGGATTAGGGAAGACAGTCTCGAATCTCAATTATGATTTCATGCCTCCAGTTCTGTAAGCCAGTACGTAGACAGACTTTCTACTTATGGAGTATCATTTAATTATCCAAGTTATATGGCAAAAAAGTGTGCGTTGTACATTGTATGTACTTGAAATTTTATTATCTGAGATAAGAGAAAACATGAATGCTGGAAAAAGTATAAAAAGAAAACTAAAAGAACTGTCATAGTGTTTGAAGACCATGATTGAAGAACTTTTGTGGTCGTTGTATTATTTTTGTGTAAGTGTCTAATTCAACATGAAATATTTTCCAACTCTGTGTCATAG
Seq C2 exon
GAAGCTATTCTGCCACATTTGCAGTCAAGGAATTATCATCCCCAAAAGAGGACATCAGTAAAGGAGAATTATGCCACCTAATGACATTAGAGAAAAATGAAACTTATGGCATCAAGGATTTTGACCTCAAGGAAATCTGTGAAAATATGCAGGAGAGTGAGAGTGAGTGGGGATATGATGCAAGAAACGACAAAGAAGTGCTTTTGACCCACAACAAAAATCTCAGTCAGAAGGAAGATCAGGATAATAAATCCTTAATTAATTTTCCTCAGAGTGTTTCTGTAAGAAGTAATACATATGAATATTTCACGCACGACAAGCCATTCATAAGAAATTTGTTAACAATGAAAGATAACATAATCATCGCTGGACACAATATAAAGTGTTTGGACAGTAGAACTGGAGCAAGACTGCAGGCACAGGTGGCTGAACTGCAGAGATTTACAACTGAGGAGAAAATGTATGGAGGCACTCAACTTGAGAAGTCAGTCAGCAATGGTTCCTCAGTTTCCTCACTTCATCAAATTCCTCCTAGTGTGGAAACCACTGTGTTATCTGCACAACACAGGAAAACACACACTCGAGAAAAATCTTACAACTGTAATGACTGTGGGAAGGCCTTTAGCAAAAAATCAAACCTCACAAATCACAAGAGAATTCACTCTGGACAGAAACCTTACAGATGTAGTGACTGTGGCAAAGCCTTTAACCACCAGTCCCACCTTATAGCACATCAGAGAGTGCATGCAGAAGAGAAAGCATATAAATGTGGTGTCTGTGGCAAGGTCTTTAGTCGAAATTCACATCTTGCAAATCATCAGAGGATGCACACTGGAGAGAAACCTTACAAATGCAATGAATGTGGCAAAGCTTTTACCCAATTTTCACACCTTAGCAGACATCAGAAGATGCATGCTGGAGAGAAACCACACAAATGTAATGAGTGTGGCAAGCATTTTACCCAGCGTTCAAACCTTATGGCACACCAGAGAATTCATACAGGAGAAAAACCTTTTAAATGTAATAAATGTGATAAGGCTTTTATTGAACGGTCACAGCTTTGGGGTCACGAGAGAACTCATACTGGAGAGAAACTTTACAAATGTGATGAGTGTGGAAAAGCCCTTACAAGACATTCATATCTTACGCAACATAAAACCATCCACACTGGAGAAAAACCTTACAAATGTAATGAGTGTGGCAAAGCTTATACCCAGTTTGCAAGCCTCACGAGGCATCTGAAAATACACACTGAAAACAAACATATGCCTCACACATATGGAAACGCTTTTATTCAAAGCTCAAAGTTAAAACAATTCAGACAAAATTTCTGCATGTATTCCAGCCTTACTCAGCTAATGGGACTCTATCAGGGTGGAAAAACACATACAGATGCCCAGCAGACACATGAAAAGATGCTCAGCATCATTAATCATCAGGGAAATGCAAAACACAAAGTCAATGAGATCCCACACTATAGTTAGAAAGACAATAAATAACAAGCATTAGCAGTGCTGTAGAGAAAAGGGTACTCTTGGGCCTTGGTGCTGGTATTGTAAATTGGTGCATCATTTATGCAAAACAGTATGAAAGATTCTCAGAAATTAAAAAACAAAAAACCTATTATGTGAGCCAGGTTTCGCACTTCTGGCCATTTACTAGCAGAACAGAAAAACACTAATTTGAGAAGATATAGGCACTCTTAATATTCACTGTAGCATTATTTCCAATAGCCAAGATATGGAAGCAACCTAAATATCCATTAATAGATGAAAAATTAGAGGATATGTGTACAAGGCGCACACACACACACACACATACACACAGGAATATTAGCCATAAATAAAGAAGTCTAGCCATTTGCAACAACATGGATGGATCTAGAGGATTATACTAAGTGAAAGAAGTCAGATGTAGAAAGACAAATACTGCATGATCTCCTTATATGTGGAATATAAGAAACAAAACACAGTGAAAACAGCTTCATAGATAATGAAGAACAAATGCCTGGTTGTTGCCAGAAGGAAGGGTGGTGTGGTTCCAGGTAAAAGAGATGAAGAGGACCAAGCCATACGAACTCCTAGGTATTTATATATGTCATGGGACTGTTACATCCTGTGTAAGGAAGATGTTTAAAAATATTGTGATGACATAGAGGATAGATGGCTACACACATCATTGTAATTGTTTTTATAAAGCAAATGTTGCCTCGTGTGTGTAGTACAGCTAAAATGAACAGTTACAATCAATTATATTTCAATAAAAGAGATTCAACCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038674:ENSBTAT00000054535:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.245
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0),PF134651=zf-H2C2_2=WD(100=4.8),PF134651=zf-H2C2_2=WD(100=5.3),PF134651=zf-H2C2_2=WD(100=5.3),PF134651=zf-H2C2_2=WD(100=5.3),PF097235=Zn-ribbon_8=WD(100=8.9),PF134651=zf-H2C2_2=WD(100=5.3),PF134651=zf-H2C2_2=WD(100=5.3),PF134651=zf-H2C2_2=WD(100=5.3),PF134651=zf-H2C2_2=WD(100=6.5)
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGAGACCTACAGGAACCT
R:
TGGCTTGTCGTGCGTGAAATA
Band lengths:
355-1155
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development