GgaINT1013962 @ galGal4
Intron Retention
Gene
ENSGALG00000026345 | GMIP
Description
GEM interacting protein [Source:HGNC Symbol;Acc:HGNC:24852]
Coordinates
JH376279.1:86202-89346:+
Coord C1 exon
JH376279.1:86202-86313
Coord A exon
JH376279.1:86314-86551
Coord C2 exon
JH376279.1:86552-89346
Length
238 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
TCGATTCTCTTTGTCTTCAGAGG
3' ss Score
8.21
Exon sequences
Seq C1 exon
AATCCCTCCTCCAAGCACAGTTCCAGCGTGGACGACGTGTCCGACATCTCATCTTCTGGAGAGGCCATGGATGGGTTCATGTTGGAGAGCGCCCACAGCTCCGAGGGTGGAG
Seq A exon
GTAAAACAGTGCTCACGATGCTGGTGTGGGTGGAGAGCTGTAAAATATGGGTCTGATTCCTACGTTTGGAAGGGGCAGAAGGGATAACCCCTCCATAGATTGGTTAGCAAAACAGAGGGGGAGTTTTAGGCTGGTAATACTTCAGGACTTCCAGTATCCTAGCAGCAAGAGAAACCGTTGGCCAACGTTATTTGTCACAGCGACCGTATCTCAATGCTTCGATTCTCTTTGTCTTCAG
Seq C2 exon
AGGTGAATGCGAGCGTTGGCTCTGAGCTGGAGGACGCGGAGGAGAAGGCAGACAGCGATTCAGAGCCGGTCTTTGGGACGCAGCCACGGGGCCATTTCAGCCGTCAGCCCGTGAAATACGTCCGAGCGCAGCCAAAAACACGACCAAACATCCCCAAGCCTTCCAGCTTGCCCTTGAGGGCTACCACATCACCCAGCATGGCCACGGACTCTGGGGCAGAGGGCAGCCCCATTGACAGCACCTGTATGGGGAAGGAGATCCTGGAAGAGAGGACGAGGAGCAGGAACAGTTCTCCGGACATGAGCGCCCTCAGGCATAAAGGGAAACAGCACAAACACTTCCAGATCACCGAGGAAACCGCCAGGATCATCTCCAAGTTTAAAGCTGATGAGGTTTCGGCTGCCCCAGAGCTCTCTTCGGGTGAGAAAGCGGTGAAATTCGGCCCGGAGATAATCCCAGAGAAAATCCTATAAGGATAACAGCTGGAAGTAGTGGAGAGGACTGCGGTCCCACTGAGATGCTGCTGCAGGAAGGGACGAGTAAAGAGATGTGGGGTGAGAACGGCACCCCACGTCGGTACGTGCAGCGCAGGGCGGAGATAAAGCATTGGCTTGGGTTGACCTGGTAGACTTTGAGTGAGCCCAGGATTTGCTCATTGGTTGAGAAATCCAACTCAAACCCAACGCCTTCCCCGGGAAGCACAACGGGAGTGAAGGAAACACAGACGGTCCCGACGGAATCGTGGGATCGCGGAGGTTGGAAAAGACCACTGAGGTCATCCAGGCTGACCGTTCTGCTCTGGGTGCTGCTGGAGTTTCCATTGGTTCGGCAGCACGAAGCCGCGTGTAAAGGGGAAACGCACTGCCAGATAGAGTGTAAGAGCTGCCACACGGCTCCCATTTCTCCCAGCTATTTGGCTCTGCGTGGATCTTCAGCCTCTGCACTACTTGTGATGCTGGCATTGTCACGAAGGGGAGGAACCCGTGGTGGATGAGAGGGTTCTCTTCACCCTACAACACCCTACAAGAGGGGCACCCCAACTTGCTGGGTCTCCATCCCACCTCTGCGGGGATCGCCCCAATTTCTGCCTCCCTGCAGCAGATTTTCTGCACAAAAATAGGAACTCGGTCCTACAGTGCCATCTCGTGACACACACATGTAGGAGAGTCTTCCTAAACCATTCCTGGGGATAACTGTGCGCTATGGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATGTCACTGCTGTGATGTTACAGCACAACCCCAACGCCATGGATGACGTCACTGGCCCTTTGTGACATCCTGACGTCACACCCCCCATCCCACCCTCCCACCCCCCCCCATTCTTGCTATGCAAACGACCCTGGGACGCTGCGGCCCTCTGGGATTTGGGGCTCAGGGGGTGCGGGGATCAATAAAGTGTGTACAGATCCACCCCGCCCCGCTGTGCTGTTTGTGGGGCAGTCTGGAGGAGGGGCCTGGATGGGAGGGGGGGGGGGGGGAAGGTTGTGCTGTGGGACCCCACCCCTTAAACATCTCCAAATCCCCCCAAAGTTCCCCAAAGACGTTATAAATAAGGCCAAATCCCTCCCCCAATCTCCTCCAAACCCTCTCGTTACAGAATTCATCCGATCTTTAAGGTCGGAAAAGTCCTCCTTGAGCCCAAAGTCCAACCCCGAGCCGTCCCCGCTGCCCCTCACGGCCCCATCTCTGCCTTTCTCCCACCCCTTTGGGGACGGCGACCCCCCACCACTTTGGAAGCACTGCCAAACCCAACAGATTCCCTGGTAGAACCCTACAGGGCCTTCTGCATCCCTGACCCCCAAACTCTGTAGGGTTCCCTGGTAGAACCTTATGGGGCCCCCTGCATTCCTGACCAGTGGCCTTGGAGCCTTTCTTTCACATTGGTCCCAGGCAGCTCCCAGACATCCCCGTGTCCTTCTCCATCCCACGTGCACTTAACCCTAACGACAGCGCTGCAATTAACCTCCTCCGAGGGTGGAGGAGAGGCGAGCCCAGGATTTGCTCATTGGTTGAGAAATCCAACTCAAACCCAACGCCTTTCCCGGGAAGCACAACGGGAGTGAAGGAAACACAGACGGTCCCGACGGAATCGTGGGATCGCGGAGGTTGGAAAAGACCACTGAGGTCATCCAGGCTGACCGTTCTGCTCCGGGTGCTGCTGGAGTTTCCATTGGTTCGGCAGCACGAAGCCGCGTGTAAAGGGGAAACGCACTGCCAGATAGAGTGTAAGAGCTGCCACACGGCTCCCATTTCTCCCAGCTATTTGGCTCTGCGTGGATCTTCAGCCTCTGCACTACTTGTGATGCTGGCATTGTCACGAAGGGGAGGAACCCGTGGTGGATGAGAGGGTTCTCTTCACCCTACAACACCCTACAAGAGGGGCACCCCAACTTGCTGGGTCTCCATCCCACCTCTGCGGGGATCGCCCCAATTTCTGCCTCCCTGCAGCAGATTTTCTGCACAAAAATAGGAACTCGGTCCTACAGTGCCATCTCGTGACACACACATGTAGGAGAGTCTTCCTACACCATTCCTGGGGATAACTGTGCGCTATGGGATGGCGTTACAGTCAAAGGTGGAGGAAATCTGCATGCAATTTGGGCAGCAGTGCAAAATGCTGCACGAGGGCAGCAATTGGCAGTGATTTCCACCCACTGCAGAGACACGGGGAGAGGAGAGGAGATCCTAACCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026345:ENSGALT00000046009:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.892
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGGTTCATGTTGGAGAGCG
R:
TCCCCATACAGGTGCTGTCAA
Band lengths:
294-532
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]