BtaINT0059130 @ bosTau6
Intron Retention
Gene
ENSBTAG00000039688 | FAM101A
Description
Bos taurus family with sequence similarity 101, member A (FAM101A), mRNA. [Source:RefSeq mRNA;Acc:NM_001205617]
Coordinates
chr17:53715930-53718425:-
Coord C1 exon
chr17:53718307-53718425
Coord A exon
chr17:53716555-53718306
Coord C2 exon
chr17:53715930-53716554
Length
1752 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CCTGTCCTCCCCTCCACCAGCTG
3' ss Score
8.79
Exon sequences
Seq C1 exon
TCCCCACAGCCCCCCGCCCACCCACCGAGCACCCCAGCACGAGAGATGAGGCCCCGGATGCTGCCTGTGTTCTTTGGGGAGAGCATTGAGGTGAACCCAGAACCCACACCAGAGATCCG
Seq A exon
GTGAGTGGGGCTGCTGGGCTGGGTAGGGGTGGGGTGGGGGTGGGATGGGTGGGGGGCCAGGCTGGGGGTCTCTGCAGGTTCCCCTTGCTCTAGGCAGCCTTTCTGAGTGATGCTTCCCGAGGAGGCATGGCTGTGATTTGGAGAGACTCTGCGGCCTTTACTGTCTACACCCTCCACCTCACCGTCCCAGGCCCACATTTGGCCATTTCCACACTGACTTCACCTCCAACCTGGCTGATTGTTATTTAAAATTTTCCCCTTTATCCCCCAAGGAGCCATTGCCCGGAAGTGTATTAGGTGCCCTCCCATCACAGGGTATCTCAAGTGGCACCTGCACTGCTGAGCCAAGGTGACCAAAGACCTTGATGCTGGGAAAGACTGAGAGCAGGAGAAGGGGGCGACAGAGGATGAGATGGTTGGATGGCATCACCGACTCTATGGACACGAGCTTGAGCAAACTCTGGGAGATAGTGAAGGACAGGGAAGCCTGGTGTGCTGCAGCCCGTGGGGTCACAAAGAGCCAGATACGACTGAATGACAACCCCACCCCCTCAGGTGCTCTTCTCCAGCCATCTGCCCTCCTGAGAGGGCTTCTGGGGCTCAGGCTTCCAGAAGGTGCAGTCTGAGGTCCGTGGGTCTGGCCCCCATATCCATGGCATGCTCAGATGGATTTGTTCACATCACTCTAGCCTGGCCAGGGATGTGGGATCCTCTGCCTCCTGCTCCTCCAGCTCTAGATATGTTTCCAGGAGACAAATGGGTCTACTTTAAAGAATTTTCTGCCCGAAAAGTTATCCTTTTTAGTTTTTATTATCAGAGGCCCCTGCCAGGGTGGTTGCGGGCTGCCTGGGCTCTTGGGAGTCTGCTTCCATCCCCCCATGGATCACCCGTGGGATCCAGTGGGGAAGGAGACAGACAGGTGAAGCCCCTGCTCCCCACAGCTTTACCTTCCAGTGTGATGATCTGGGAGCAGAGCTGGGGGCTGCTGAGCAGCTGGCCACTCATGAGGGGGTCACCCCTGGAGGAGGGCATGGCAACCCACTCCAGTATTCTTCCTTGGAGAATCCCATGGACAGAGGAGCCTGGTGGGCTATACAGTCTATGGGGTCGCAAAGAGTCAGACACTACTGAGTGACTAAGCCCAGGGCAGCGCAAGGGGCTCACTCATCTGGAGGAGCCGACGCTACTCTGGGGGAACTTATTTTGATAAAATTTCAAACGTAAAGAAAGTTGCAGGAAGAGTATAGGGGACCCTGGTTGAACTGATTCCTTGTTGTTTCTATATTGCCCCGTTGGCTTGAACAGCCACACGCTCTCACTCATTCTACATAAACAAAACATTTTTTCTGACCTGTTTGAGAGGAGGATGACGACATCTTGACCTCGAACCTCTAAATAAGTCTGGCTGGTGTCCTTCCTGAGAACAGGGACATCCTCTCACATAATGACGGTCCGCTTGCCAAAATCGGACCAGCTAAAGCTAAAAACACGACCACTGCCTAGTCCAATTCCGCCCATTGTCCCCAAATGTCCTTTTATAGCCTATTTTTAATCCCAGTCCAGGATCCCGCCAACTACATGTGGCATGTAGTTGGCCCGTTTCTTGAGTCTTCTCCGAGTCGGCAGGGTTCCTTCTTTGTCCTTTTGACCTTGACATTTTGCAAGAGCCCAGGATGCTCAATGTCCACCTTGCCCTCTGATCATGACCTGACTGCCCGGTCCTGAGCTCACCCCTGTCCTCCCCTCCACCAG
Seq C2 exon
CTGCAATTCTGAGGTCAAGTATGCATCGGAGAAGCACTTCCGGGACAAGGTCTTCTATGCGCCGGTACCCACGGTCACGGCCTACAGCGAGACGATCGTGGCCGCCCCCAACTGCACTTGGCGCAACTACCGCAGCCAGCTGACCCTGGAGCCGCGCCCTCGCGCCCTGCGCTTCCGCAGCACCACCATCATCTTCCCCAAGTGTGCCAGCAACTCCTTCCGCACCACCCTGCACCTCAGCCTGGGCCGGCCCCGCTGCTGGTTCACGGCCAGTGTGCAGCTGCAGCTGTGCCCGCGCCCCGGGCCCGGTCTCCTGGGCCCCACGCCGCTCTGACCCACAGCCCGGCCCGGGTGGTGGTGCCGTTGGCGGCGAACCAGGGTCATCCCTGGGGCAGCCGGAGGATGGACTCCGCTATTGGGAAGGACCCTGGGCTGTGTTTACCCTGGCCGCTGGGGCTCACCCAATAGACACATCTATTTTATCAGCACCTATTTGGGAAGACAACTTGGGCCTGGCTCTCGGAGGAGCAGGGGGCGGGGGCAGGTAGATAGGCGGCAATGGAGAGAAGAAGGCACGTGTCCTTGGCTGCTCCTGAGGCGGGGACACCCTGAGCATCGGCAGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039688:ENSBTAT00000046321:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.475 A=NA C2=0.054
Domain overlap (PFAM):
C1:
PF150681=FAM101=PU(28.3=97.5)
A:
NA
C2:
PF150681=FAM101=PD(71.0=87.5)
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:
ATGCTGCCTGTGTTCTTTGGG
R:
CTGCACACTGGCCGTGAAC
Band lengths:
342-2094
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development