BtaINT0067425 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015144 | GMIP
Description
GEM interacting protein [Source:HGNC Symbol;Acc:HGNC:24852]
Coordinates
chr7:3620284-3622471:+
Coord C1 exon
chr7:3620284-3620671
Coord A exon
chr7:3620672-3622404
Coord C2 exon
chr7:3622405-3622471
Length
1733 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
TCCTGGGTTTCTTCTTACAGATT
3' ss Score
10.41
Exon sequences
Seq C1 exon
GGTGGCTGCACAGTTTGAGGACAACAAGATGTCTGCCAACAACCTGGGCATTGTATTTGGGCCGACGCTGTTGCGGCTGCCCGACGGTCCAGGGCCAGCAGGTGCCGGGCCTGTCACCTGCCTGCTGGATTCCGCACACCAGGCTCAGCTCGTCGAGTTCCTCATTGTGCACTATGAGCAGATCTTTGGGCCTGACGAGCTCCTCCTGGCCACTGAGCCCCTGCCCCGAGACCCCAGCCCACCCCCTGCGACCCTCCCAGCTAGCCTCCAGCCACCACACTTACAACTTGTCCTGGACCCCCTGCCCTTATCCCTAGCCTCAGACCGGGACCCAGACGCCATGCTCCTTGGTGCCCTGGAGAAGCATCCCGAGGCCACGCTCCCAGAG
Seq A exon
GTAGGAACCTGCTGGGCCCACAGACATGGGGAGAACCTGCTCTCCATGTAATCCTCCCACTGTCTCTCCTGTCTTCCTTCCTTCCTTCCCCTTTAAAATTGTCTATTTCATTCCCTTCCTCCTTTATTATTGACCCTGCGCTCATCCTGAAAGGAAAAGTAAGGAATGGAGTGGTGGGAAATAATGGGATAACAACAGGGTACAGCCTTGCAGAGATCCTAACATGAATACTATTGATTCCTTCAACAGAATATTTATTGAACACCTACTGTGTGCCAAGCATTGTTCTAGGCATTACATATATATCAGCAAAATACTCAGAGTCCACCCTCTTGGTTGCCTCCCTTCTAGTGAGGAAAAAACCAACAATAAACAAGATATATGATACAAAGTTATACAAAGGTATATAGGATGTTACAAGGTGATGAGTACTCTAAAGGAAAGAAAGGGTTGGGTAAAGTAAGAGACGTCAAGGGCACCAAGGTGAGAGGTGGTGGGCAGTTTGTAACGGTAAATAGGAGGCTGTGGGTGCGTCCCATGAAGAAGATGAGTCTGCTCAAAGACTAGAAGGATGTGAGGGGGAAGTAAGCCAGGTGGAGACCAGGGAAAGGGTGTTCCAGGCAAAGGGAACAGCCAGTACAACAGCCCTGAGGTGGGACCATGCCTGCTGTGTTCAGGACACAGCCCTATGCTGTAATGAATGAGTGAGGGGAAGGTGGTAGGAAGTGAGGCCAAAGAGGGGTGTGCAAGCCTCCATTGACTGCATACCTACAGTGCAGGTGAGTTTGCATAGTAAGTGCCCTAAGAGGTACCTACTGTTAGTGAAAACCATATATAGATGGGACTCTTAGGGGAGGCTTCCTGTCCCTCAGGTCCTGATATACTCACCATTCCTGAGAGCTTGGATCTCCCCTGTAGCACCCCAGAGCCGGAAAAGGGGCTGTGAGTGAGGTGTGGGACTCAGAACTTCAGAAAGTGCTCAGGACCGAGAGAGAGCATTCCAACTGCTATTAGCATTTAGCGAAAGGATAAACTAAAAGGTACACAGATAAGCTAAAAAAGCAGGCCTAAAATTGCAGAAAGTATAGCAGGATGGAGATCAGTAGTTCACCCCTTCCTAACGGAGAGATGGCTGTCACTTTCCAGGCTGGTCCTCTGCTGCCTGTAATGCGGGAGACCTGGGTTCGATCCCTGGGTCGGGAATATCCCCTGGAGCAGGGAATGGCAACCCACCCCGGTATTCTTGCCTGGAGAATCCTGTGGCCAGAGGAGCCCAGTGGGCTATAGTTCATGGGTTCGCAAAGAGTCAGACACAACTGAGTGACTAACAACCAACAACCTCTGCTGAACAAAGACATTCCCACTTTACAGAGCCCACAGTTGAGATTAATGACACCTCTTCTCAGGAGGGCAAGCAGTACATTCTTGAGGGCATCATCTCTCCCCAAATAACAAAACTGAAACGAGGAGCTTTGGCATGTTCAGGAGTCTCCAAGAACTGGGATTTTATTGCTGGTTCTAGAGTCTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACGGTGGGGCCTGGTGGGCTGCCGTCTACGGGGTCGCACAGAGTCGGACACGACTGAAGCGACTTAGCAGCAGCAGCAGCAGAGTCTCCAAGAACTGCGATTTTATTGCTGGTTCAAGAATCTCCAAGAACTGGGATTTTATTGCTGGAGGTCTCATTCCTGGGTTTCTTCTTACAG
Seq C2 exon
ATTTCAACTCTGCAGAGTGAGCAGGAAGAGGAAATAACCGAAGACATCAAAAATGAGGGAGGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015144:ENSBTAT00000020147:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.431 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=PD(19.6=24.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
GTCACCTGCCTGCTGGATTC
R:
TTCCCCTCCCTCATTTTTGATGT
Band lengths:
342-2075
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]