BtaINT0065569 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006948 | GARNL3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:HGNC Symbol;Acc:HGNC:25425]
Coordinates
chr11:98155818-98158329:+
Coord C1 exon
chr11:98155818-98155944
Coord A exon
chr11:98155945-98157861
Coord C2 exon
chr11:98157862-98158329
Length
1917 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CTGTGACTTTTCTCCTCTAGGAT
3' ss Score
12.4
Exon sequences
Seq C1 exon
GCCTCTCTGATGACGGTGGATCCAGGTCAGAAGGAGCACCAAAGCCCAAGTCAAAGGCCCGGAAGCGGCTGGAAGAAAACCAAGGAGGCCCCAGGCCAGGGACGGTGCGGTCCACTAGCAGTGACAG
Seq A exon
GTAAAGAGGGACGTGGCCCCTGCTCAGGGTGGTGGCCCCTCAAGTCATGGGACAGCCACAAGGCCCCTTCTGCTGGGTGACGGTGCGTGGGCCAGCCCCTTGGGCCAGCTGCAGCAGAGGCTCAGCGGCCATATCCTCTCTGAGGACCCCCAGAGAGCACAGCCTGCCAGGAAGGGGCCCAGGCAAAGGGGCAACCTCACTAGCAACCCAACAAATGCACACTGAAATACAGAGACGTCTTTTGCTCACCAAATTGACAGAGACTTTTTTAAAACAAAGTGCTCTCCAGTACTTCTGGTGGATCCTTTCTGGATGGCCATTCAGTATCACACATCTATGAATATTTGTTGAATCCCACTGATTTGTCCCCTGAGGTTCTCTGTGTCCCTCATAAAACACCTTGCCTGCTTCTCTGTGGAGGCCAAGGGGGCATGTGTTCAGGTTCCATTCATTCAGGCAACACAAATTCTTAGAGCACCTGGCACTGAGCTGGGGACATGGAGCTGAACTTCAGGGGCTCATGGGCTGGTGGGGAAGGCCAACCTTCCCCAGAATTATAGAGAATTATACCATTCCAGGGCAGCAGGTGATACAGAAGAATGAGGTGTGCCATTCATTCCACGCCTGGGGTAGAGGGGTCCCAAACATCAGGAAAGGCTGAGCCAAATCTCATAAATCAAGCAACCATTAGCCTGGCCCAGAGAGGAAGGCACTCACTCAGGCTTTAATCCAACACTTTCACTGAGCTCCTACCGTGTGACCAGGCCCCTACCCTCATGGACTTTACATTTTAGTGTGGAGAAACAGACAATAAACCTGTGAACAAGTAAGCAATTTCTATCACTTCCTTTCGTGACCAGCACTGCAAGGAAGTTTAAAACAAAGTGATGGGGGTGGGGTGGATAGAAGGTCTACTTGAGGTGGGGGCTGGGAGTCAAGGAAGGCTTCTTGGAGGAAGTGGCATGGAGCTGAGCTCTGAATGAGAAGGAGCTGGGGGAACAGCCCTTCTGGTAGCTGAACCAGCAGGGGCAAAAGCCCTGAAGAGAGAGAGAAGGAAGTAAGTGGGTCAGCTTGGCACAGATAAGGAGGTGAGGTCAAGAACAACCAGAGGCTGGACCTCGGGCTTTTACAAGGCTACATGAGTCCTTGGTGAACGGAGGAACTCCCTGAATCAAAACCTGGTCAAACTGGTTTTGCAGGTGTTGAGAGTGTGAGCATCCTGAGTGCAGGAGAAAATAGAGGGCAATGATGGGCTGGGAGGAGGCCAGAGGGGTCAGCAGGGTGGGGCCTGTGGGCCTGTGGACAGGTGTTTCAGCCTTGTCCTCAGGCCATGGGGAGCCAGGGGAGGGTTTATCCCAATTTGCCTCACAAACACATATGTGTCACCACTGACCTTTCTTTTTTCCCATTTTTTTTTCTTTTTTCTAATGGTGATAATATAAAACATACTATTTTAACCACATTTAACTGTACAGTTCAGCAGCACCAAGTACATTCACATTGTTGTGCAACTTCCACCACCATCCGTCTCCTGAATGTTTCACGTTCCTAAACTGCAACTCTGTCCCCATTAACCACTAATTCCCCATCTGCCCACCCCATAGCCCTACCCCAGCCCCTGGCATCTACCAATGTACAATACCAATGGCATCTACTTTCTGACTCCATGAATTTGACTATTCTAGGTATCTCATATAAGTGGCCTTTAAAACCCGTAACAACCCAGGAGATCGGACAGTCTGCCTGCAGAACACAAGCTCTGTTGGGGCGGGCATCACCCACCTGCATGTGCCCACCTCTCCCTCACAATGGTGGGGGGTGGGAAAGACAGGCTTTCGCATTTAGGGGAGGAGGAAACAGAGTAGCCAGCTCAGTGGTGCACCCCAGGATCTGTTCACTGTGACTTTTCTCCTCTAG
Seq C2 exon
GATCACATCGAGCTCCCTAGAAAGTCCTTCCACTTCCGAAGCCAATCCCAATGGGCGTTACCAGTCGACCAGCTCCGACCCAGACCCTGTGGCCGAGCAAGAAGGCAGCCCTGTCTGGGGCAGCTGCCCCTTTCAGCTCACCGCTTTCTCGGATGAAGACATGATTGACTTGAAGTAAACAGAGTCCCAATCGAGTTTGCCATGTTTAATTTTCTTACAGAGGTTTATACTCTTTAGCCAGTTCTGACATCATTTCTCAACAAAATGTGGCTTTTAGCCTGTCCATGATCTATTGGACCAAACCTTCTGCACCCTTGGCCTGTTTGGGTCACTCTCCAATGTCCGGTGCCATCTTTCTTGACCTTTATTTCTTTCTGTTCAGGAACCATCAGTTCCCTTGTAATAAAGTGGTAGATTTCATTGAGGTTTTAGATTGAAACTTTGAATAAATCAAAAATATTCATTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006948:ENSBTAT00000009123:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.949
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGAAAACCAAGGAGGCCCC
R:
GGTCCAATAGATCATGGACAGGC
Band lengths:
355-2272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development