GgaINT0103746 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79371389-79372831:-
Coord C1 exon
chr1:79372768-79372831
Coord A exon
chr1:79371532-79372767
Coord C2 exon
chr1:79371389-79371531
Length
1236 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
CTATTTCTTCTTTCTTTTAGCTT
3' ss Score
10.03
Exon sequences
Seq C1 exon
GTGATGGCCAGGGGCAGTATTATGTTAGCAGACACCCATGATCTGACTGTGGATCCTGGAAATG
Seq A exon
GTGAGCAGAAATATGGATTTTTAGCATCTACTATGAGGTGGGGGGTAGGAGGATATAGAGAAATCATTTCAGTTCAAACATTTTAAAAAATTGAAGAACATTATGAAACGTAATTCTTTTTAGATTAAGTAGTTTGAGTTGGTTTTGTTTTGTCTGGATTCTCTCTGTTGCTATGCTTTTGACCAAAATATTTTAGAAGATATACAGAAAATACAAAGATTTTTTTTCTCAAACTAGTGCTTTCCTGCTGACCAATGTAATCAATTCTGATTGTGAGTACTTGTCAATGTTGTTGGATCCACAGGTGGGTGGGCAGATGTGTCTCCCTTTCCTTCTGTTTCTCAGTTTTATTTGAGGATGTTATTTCTCCTGTATAAATATGAAAACATGTATATACATATGTTCCAACCAATGCATGTAATTCTGTATGCTTAAATGTCCATGGATTACACATTTGAGTGATTGAGACTGTGTTGCATCTTTAAGTCTTTTGACAATGAGACTAAGGAAACCATTTTGGAAGTCTATGAGGATTTGTACCATAGTGGGAATAAACTGTATGCAGAAATAAAAGATCTTGGTTGCTACAAGGCATGATGCTGTGGGAAGGTGTTAGAAAATTCTGCTTCCCCACTAATTGTAGTAACTAAACTAACACCCTGATTCATACCAAGAGATTTTCTATCACCTTCATATGAACTGTGAAATGAAACTCAGGCCCAGCTAGAAAGATCCTTTCAATATAAAGGAGCATTTTCCACTATAGCTGGGGTGATAGTTTGGTCTTCCAGGTAAATACTAGCTTAGTAGCTAGAGTAGCTTTGAGTAATATTTCTTTCAGTCATACTGCAGCCTTGACTGCTGCTGCTCACTACAACTGTCCCTACTTTCTATGTTCTTTTTTTGTTGTCTGTTGTTCTGTAGACTGCAGAAGTTATTAGAGCTTGAGGAATAAAGAGGTTAGGAACATTAGGAGGTAATGCCAGATGATAGCTAGGGAGGATCCAGAGGGCAAGTTGAGGCCCACCAAACATCTCATTGGGCTATTACATAATCACTATCACAGATTGAATGCAGATGTCAACAGCAATAAGCATAGACTTCAGTCGTGTATCAGTATTTATGCCCCTCTTAAGTAAAATTGTTCAACATGAGTGAACTTGACTTCCTTATATTGAGAAGACAAATATATAGGCTGGAACATCTTGTTATATAGCTATTTCTTCTTTCTTTTAG
Seq C2 exon
CTTACGGGATATTTCAGTTGATCTTACCTGTTGAGATGACAATTGCTCCCCTGGCACAGATGCTTGTGTATACCACTTCACCCAGTGGAGAAGTCATTGCTAGTACAGCAGAATTCCAGGTTGAAAGTTGCCTTCTCAATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011926:ENSGALT00000019456:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF077039=A2M_N_2=FE(14.2=100)
A:
NA
C2:
PF077039=A2M_N_2=FE(31.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGGGGCAGTATTATGTTAGCA
R:
ACTTTCAACCTGGAATTCTGCTGT
Band lengths:
185-1421
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]