GgaINT0145870 @ galGal3
Intron Retention
Gene
ENSGALG00000000307 | E1C668_CHICK
Description
NA
Coordinates
chr28:71291-72703:-
Coord C1 exon
chr28:72611-72703
Coord A exon
chr28:71420-72610
Coord C2 exon
chr28:71291-71419
Length
1191 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CCTGTCCCCTTTTTCTTCAGGAC
3' ss Score
12.39
Exon sequences
Seq C1 exon
CCTCTCCAGCCCTCTCTGTTCTGGTACTACATGCTGGAGCTCTCCTTCTACTGCTCACTGGTCTTCACCTTGCCCTTTGATGTGAAGAGGAAG
Seq A exon
GTGAGTGACAATGCCAGGGAAGAGTCAAGCACAAACAGAATGCAAGCTTAATGCTAGGGAGAGTGTTCTTCAAGAGTGCTTGGTGTATACAGTGCCAGTCTGATGTCCTGTGGCACTCTGGCCTTGCTCATTGCTAGGAATTTCCATTCCCAGTCACTCGCTTCCCTTTCCTCTGGGAGGTGGGGAATGCAATCCCTGGCATGGAGAGGTGTGAGCTACCACATGGGATATGACCGACACACCAGAGGGTAGGGATGCCATTCAGAGGGACCTAGACAGACGTGAGCAGTGGGTGCAGGAGAACCTCATGAGGTTCAACAAAGCTAAGTGCAAGGTCATGCACCTGGGTCAAGGCAACCCCCACTACCAAAACAAGCGGAGGATGTAAGGATAGAGCACAACCGTGCCAAAAAGTACTTAGGGGTACTGGTGAGTGGGAAGCTGGGCATGAGCCAGCAATGTGCCCAGAAAACCAACTGTACCCTGGGCTGCATCAAAAGCAGTGTGGTCTGTCAGGCAAGGGAGGTGCTCCTGCTCCTCTGCTCTGTACTGTGAGATTTCACCTGGAGCACTGTGTCCAGATGGGGAGGCCTCAGTACAGGAGAGACACAGAGCTGTTAGAACATGTGCAGAGGAGGGCCACAGAAATCATCCCAGGGCCAGAACACCTCTCCTATGAGGACAGGCTGAGAGCAGGGGCTGTGCAGTCTGGAGAAGGAAAGGCTCTGAGGAGATCTGAGAGCAGCCTTTCAGTATCTAAAGAGGAACTACAGGAAAGAAGGGGACAGACTCTTCAGCAGAGTCTATGGTCACAGAACAAGGAGAAATGGTTTCAGATTAAAAGAGGGGAGATTTAGATTGGATTTAAGGAAAAAGTCTTTTACAGTGAGGATGTTGAGGCACTGGCACAGGTTGCCCAGAGATGTGGTGGATGCCCGTCCTTGGAGACGCTCAGAATCAGGCTGGACAAGGCTCTGAGCAGTCTGATCTAGCTGTGGATGTCCCTGCTCACTGCAGGAAAGATGGACTAAATGACCTTTAAAGGTCCAAGGATTCTATGATTCTATAATTCTGAGACATTACATTGTGAGTTTTTTTGAGAGATTTTATTGCTACCTGCAGGACACATGCTCTAACCAAGACAGAAGGTACACTGTGTGTTTTATTTTTTCCTGTCCCCTTTTTCTTCAG
Seq C2 exon
GACTTCAAGGAGCAGATAGTCCATCATGCTGCAACCATCTTCCTGATCAGTTTCTCATACTGTGCCAATTACATCCGGATTGGGACACTGGTGATGGTGATTCATGATGCTTCTGATTGCTTCCTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000307:ENSGALT00000000407:8
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:
PF0379811=TRAM_LAG1_CLN8=FE(15.5=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(21.6=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:
CCTCTCCAGCCCTCTCTGTTC
R:
CTCTAGGAAGCAATCAGAAGCA
Band lengths:
222-1413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]