BtaINT0122960 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010291 | RBAK
Description
Bos taurus RB-associated KRAB zinc finger (RBAK), mRNA. [Source:RefSeq mRNA;Acc:NM_001191256]
Coordinates
chr25:39087545-39089918:+
Coord C1 exon
chr25:39087545-39087640
Coord A exon
chr25:39087641-39087805
Coord C2 exon
chr25:39087806-39089918
Length
165 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTAATTTTATTCTTTTTTAGAAA
3' ss Score
10.14
Exon sequences
Seq C1 exon
GGTATGACAGCACCAAACCCAATGTGATCATCAAGTTGGAGCAAGGAGAAGAGCCATGGGTAGTAGACAGCAAGTTCCTACAGCAGCAGCATTCAG
Seq A exon
GTGAGGTGGTGGGATGTGATGTTTGTAAATGGTCACTTAGTTTTATGTGTGGAGATTGACCCGAAAGCTAGAGTCAAGCCTGCAGTAGGCCCTTGAGTACTGCTCTAATCCTATAATTTGGTGTGTTCAGATTCACAAGATTTGTTTAATTTTATTCTTTTTTAG
Seq C2 exon
AAAAAGTCTGGAAAGTTGGTGACTTGATAGAGAGAATCCAAGAAAATGGAGATGAATGTTCAAGGCAAGCTGTTTCTATCAACAGCAGAACCCTGACTGAGGAGAGAGAGGATGCGTTTGATAAAACATATAATGTGGAAACAAGTCTTGCTCCGTTAAATCTAACGTCTTATAATTGTATCTCATGTGGGAAGACTTTGGAATCTACTTCAGAATTAATTATTAGTGATGGAAGCTATGCAAGAAAGAAACCTGATGAGTGTAATGAATGTGGAAAAATGTATGGAGAGAAACTCTATGAATTTCATCAAAATGGGGAAGCCTGTTCTCAAAATGAAGAAAGTATTCAGAAAATTAGTATTTTGGAGAAACCCTTTGAATATAATGGATGCACAGAAGCCTTAGACAATGAAGCCGTTTTTATTACGCATAAGAGCACTTATATGGGGGAGAAGTGCTATGAGTGGAATGATTCTAGACCAGACTTCATCCAGATGTCAAATTTTAATATATACCAGAGATCACAGATGGACTTGAAGCCCTTTGAATGCCGTGAGTGTGGAAAATCCTTCTGCAAAAAGTCAAAATTCATTATACATCAGAGGGCTCACACAGGAGAGAAACCTTACGCATGTACTGTATGTGGGAAATCCTTCAGCCAAAAAGGAACCCTCACCGTGCATCGGAGATCACATTTAGAGGAGAAACCGTATAAGTGCAATGAGTGCGGAAAAACCTTCTGTCAAAAGTTGCACCTCACACAACACCTGAGGACTCATTCAGGAGAGAAGCCCTATGAATGTAATGAGTGTGGGAAAACCTTCTGCCAAAAGACACATCTCACCCTACACCAGAGAAACCATTCAGGAGAAAGACCCTATCCATGTAGCGAATGCGGGAAATCCTTCTCCCGCAAGTCAGCTCTTAGCGACCACCAGAGAACCCACACAGGAGAGAAGCTTTACAAATGCAATGAATGTGGGAAATCCTACTACCGGAAATCCACCCTCATCACACACCAGAGAACACACACAGGAGAGAAGCCCTACCAGTGCAGTGAGTGTGGGAAGTTTTTCTCTCGAGTGTCATACCTCACTATCCATTACAGGAGTCACTTAGAAGAGAAGCCCTATGAATGTAATGAGTGCGGAAAAACCTTCAACCTCAACTCAGCCTTTATCAGACATCGGAAAGTACACACAGATGAGAAGCCCCACGAATGCAGTGAGTGTGGGAAGCTCTCACACCTCACCAGCCTTCACACAACTCATCTAGGAGAGAAGCCCTATGAATGTAGTGAGTGTGGGAAAACCTTCCTTGAAAACTCAGCTTTCAATGGGCACCAGCCGCTTCCCACAGGGGAGAAGTCGTATGAATGTAACATATGCGGGAAGGTGTTCTCTGAGCTGTCGTACTACACCATACATTATAGGAGTCATTCGGAAGAGAAACCCTATGGGTGTAACGAGTGTGGGAAAACCTTCTCCCATAACTCATCCCTCTTCCGACACCAGAGAGTCCACACAGGAGAGAAGCCTTACGAGTGTTACGAGTGTGGGAAGTTCTTCTCTCAGAAGTCTTATCTAACGATACATCACAGGATCCACTCGGGAGAGAAACCCTATGAATGTAGCAAGTGCGGGAAAGTCTTCTCTCGGATGTCAAACCTCACTGTGCACTACAGAAGCCATTCGGGAGAGAAGCCCTACGAATGTAATGAATGTGGGAAAGTCTTCTCTCAGAAGTCATACCTCACTGTGCATTACAGGACTCATTCAGGAGAGAAGCCGTATGAATGTAATGAGTGTGGGAAAAAATTCCACCACAGGTCAGCCTTCAACAGCCATCAGAGAATTCACAGGAGAGGGAACTTGAATGTACTTGACATGGGAAGTCTCCTCTGAAGTCAGTTCTCATTCTAGAAAATCCTCTGCACATAATGGATGTGGCAAGTCCAGCTGAGAATCAGATACCACTGTCTGAGGGTTCCTGTTTCTGAATGAGGAAAAGCGTTTAGACATTGGGTTGATTCTAACCTGAATGTTCACGAAGACCAATCCCTAAAAACACAAGAAGCAAAGCTTTCAGCAACTCATTGGACAACTAGACAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010291:ENSBTAT00000013588:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=3.9),PF134651=zf-H2C2_2=WD(100=3.8),PF134651=zf-H2C2_2=WD(100=3.8),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=3.9),PF134651=zf-H2C2_2=WD(100=3.9),PF134651=zf-H2C2_2=WD(100=3.9),PF134651=zf-H2C2_2=WD(100=4.4),PF0009621=zf-C2H2=WD(100=3.6),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCACCAAACCCAATGTGA
R:
ACGGAGCAAGACTTGTTTCCA
Band lengths:
246-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]