BtaINT0060174 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012970 | FAM53B
Description
family with sequence similarity 53, member B [Source:HGNC Symbol;Acc:HGNC:28968]
Coordinates
chr26:44619642-44621291:-
Coord C1 exon
chr26:44620513-44621291
Coord A exon
chr26:44619675-44620512
Coord C2 exon
chr26:44619642-44619674
Length
838 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CGTCTTTTCTAGTCTTATTGTCT
3' ss Score
-6.6
Exon sequences
Seq C1 exon
AAAATGACAGATGGCGAGACCTGGACAGGAAGTGCCCCCTTCAGATCGACCAGCCGAGCGCCAGCATCTGGGAGTGCCTGCCGGACAAGTGCCAGGACAGCGCCCTGTGGCACCGGGAGGCGGCCACCACCTGCGCGGTCACCAACCTGATCAAAGACCTCAGCCTCAGTGACCACAACGGACACCCGTCCGCGCCCCCCAGCAAGCGCCAGTGCCGGTCGCTGTCCTTCTCGGACGAGATGGCCAGCTGCCGGACGTCGTGGAGGCCCTTGGGGTCCAAAGTCTGGACGCCGGTGGAGAAGAGGCGCTGCTACAGCGGGGGCAGCGTGCAGCGTTACTCCAACGGCTTCGGCACCATGCAGCGGAGCTCCAGCTTCAGCCTCCCGTCCCGCGCCAGCACGCTGTCCTCGCCCTACGACCCGGCGGGACTCCACCCGCGGCCCGGCGGCCCGCCCGGCCCGGGGGTGCTGGGCCCGGCCACCTGCGGACAGGCAGGCGACCTCTGGGGCCCCGCGGCGAGCCCCGTGGGCGGCGGCCGGCTGGATATGCAGCGCTCCCTGTCCTGCTCGCATGAGCAGTTCTCCTTTGCGGAGTACTGCCCGCCCTCCGCCAGCAGCACCCCCGCCTCGACGCCAGAGCCGGCCAGGCGCTCGGGCGGGCTGGCCCGCAGCCGCTCCCAGCCCTGCGTCCTTAATGACAAGAAGGTGGGCATCAAGCGGCGGCGCCCCGAGGAGGCACAGGAGCAGAGGCCCTCCCTGGATCTTGCCAAGATGGCACAG
Seq A exon
GTAAGAGTGCCCTGCCCTGAGGAGGCGCTGCAGAAGCCACCAGGGGTGTCTCGGAGCCTCCCTGGATCCCGGTCCAGCCCGGGCAAGGGCAGGGTGCCCGCATCGAAGAGGCCCGGGAAGCTGGTTCATTTCCTCGTTCTTAAAATCTGATACGGTGAAAAATGAAATCAAGCCCCCCACCCCCCACCCTTAAAGCCATTGCCATTTCAAAACAGAAACGCTCTCTCCCGGCACTAGCAGTGCTGGCTGTGCAGGAGCAGAGAGCCAGGAAGAGGCAGGCGCAGCCTCACAGACGCTGGGGGTCCCCTCCTGGCCCTTCTCAGGGGCCTCCCCCAGGAGCCCCTGTCCCCACAGCTGCTGTAGGAACCGCTCGCACAGGTGGGGTTCAGCGTCACTCAGATCATGCTGATCCCGAGGTCAGGGCGGTGAGTGACGGTTTCAGAGGATGAGACGACAGGGGCTGGGGGGCGGGGGAGGCACGCACTCTTGTGAGTGAGCTGCCGAAAGCGTGCGTCCAGCAAGAAACGGCACTCACCCTCGCTGCCCCTGGAGGTGTGGCCTCTGGCCACGCGCCCTGTCACTCGCGCGTCATCCTCTGTCTTGGGGCCCTGGCCGCCCTCGCTCGTGCTTGGTCTCGGGTGTTGGTTTGAGTGAGCTGAACTTGGAGTTAATGCACCATCATCAGAACAGCCTCCAAGCCTGAGAGCTGCCTGCATTGGGGAGTCCCGAGGGTCAGATCCCCAGGAGCAGGGCTGGCCCCTCGAGGACGGATGCGTACGGTGGGTTCTGGGTCCGGGGGGCCCTTGGGTGCTCAGGGCCGTCTTTTCTAGTCTTATTG
Seq C2 exon
TCTGAGCTTCAGTCGCGGCTGGGCTTGAGGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012970:ENSBTAT00000017243:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.527 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF152421=FAM53=FE(85.2=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAGGCAGGCGACCTCT
R:
TTCCCTCAAGCCCAGCCG
Band lengths:
326-1164
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]