GgaINT0047682 @ galGal3
Intron Retention
Gene
ENSGALG00000010943 | E1C4S3_CHICK
Description
NA
Coordinates
chr7:21126115-21127884:+
Coord C1 exon
chr7:21126115-21126385
Coord A exon
chr7:21126386-21126727
Coord C2 exon
chr7:21126728-21127884
Length
342 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
TATTTGTCCTCCTATTTTAGGTA
3' ss Score
11.5
Exon sequences
Seq C1 exon
AACAAGTTTCAAGGCATGGTCTTTGATTTTGTGACACAGCAAGTATTCGACATTAGCATCATGATTCTTATCTGTCTTAACATGGTTACCATGATGGTAGAAACTGATGACCAGAGTAAAGAAATGGAAAATATTTTATACTGGATAAACTTGGTGTTCATTGTCCTTTTCACTGGAGAATGTGTCCTGAAATTAATTTCACTCCGCCATTATTATTTCACTATAGGCTGGAATATTTTTGATTTTGTAGTTGTCATTCTCTCAATAGTAG
Seq A exon
GTAAGTCTCATTTATTAACCTATAAAGAGGGTAAAATGAGTATAAATTGAACTTTCACTCAGTAGTACTATATGGCTAGCTTTTGCCATTCCAAGGCTTCTAAGTCTTGCATGTTCTCATTTTATCTAATGATTTACCTAATCACCGTGATTGTTGTAATCATTCAAAATACATTGCACTTGTAAATATTAACTGTAACTGGTAGAAATTATGCAAGTGTAATCTACAGAATATCTTTAATTGCTGCATAGAACATCAGTTTTAAAACTATTTTTCTAAATTATCACTACAATATGGAGAGTGTGGTAATATATCCTTATTTTATTTGTCCTCCTATTTTAG
Seq C2 exon
GTATGTTCTTAGCTGAGATGATTGAAAAGTATTTTGTGTCCCCTACTTTGTTCCGAGTCATCCGACTTGCCAGAATAGGCCGCATTCTGCGTCTCATTAAAGGCGCAAAGGGAATCCGCACTCTGCTTTTTGCTCTGATGATGTCTCTTCCTGCTTTGTTCAACATTGGCCTGCTGCTCTTCTTGGTCATGTTTATCTATGCGATATTTGGCATGTCCAACTTTGCCTACGTTAAGAGGGAAGCTGGGATTGATGACATGTTCAACTTTGAAACATTTGGCAACAGCATGATCTGCCTATTTCAAATTACCACATCTGCTGGCTGGGATGGCTTGTTAGCCCCAATTCTTAACAGTGGGGAGCCGGACTGTGACCCTAACAAAGCTCACCCAGGGAGCTCTGTTAAAGGTGACTGTGGCAACCCTTCAGTTGGGATTTTCTTCTTTGTCAGCTACATCATCATATCCTTTTTGGTGGTGGTGAACATGTACATTGCTGTCATTCTGGAGAATTTTGGTGTTGCAACTGAAGAAAGTGCTGAGCCCTTGAGTGAGGATGACTTTGAGATGTTCTATGAGGTCTGGGAGAAGTTTGATCCAGATGCAACACAATTCATGGAATTTGAGAAGTTGTCTGATTTTGCAGCAGCTCTTGAGCCTCCTCTTCACCTTCCCAAACCAAACAAGGTCCAGCTGATTGCAATGGATCTGCCCATGGTAAGCGGTGACAGAATTCACTGCCTTGACATCTTGTTTGCTTTCACAAAACGTGTGTTAGGGGAAAGTGGGGAGATGGATGCCCTCAGAATACAGATGGAAGACCGATTTATGGCATCAAATCCTTCTAAGGCTTCCTATGAACCGATTACAACAACATTAAAAAGAAAACAAGAAGAAGTATCTGCTGTCATTATTCAACGTGCTTTTAGACGCCACCTTTTAAAACGAACAGTAAAACAAGCCTCCTTTATCTATAACAAAAACAAAACTGAAGGAGGGGCTGGTCTGGGCATTAAAGATGAAATCCTTATGGACAAGTTAAATGAAAACTCATTTACAGAAAAGACTGATATAACTGCATCAACAGCAGTTTGTCCACCTTCTTATGATCGTGTAACAAGGGCAGTCAAAGAAAAGCATGAAAAGGAAGACAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943:ENSGALT00000017814:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.085
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PU(20.4=47.3)
A:
NA
C2:
PF0052026=Ion_trans=PD(79.1=43.3),PF0061222=IQ=WD(100=5.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGACACAGCAAGTATTCGACA
R:
TTGCGCCTTTAATGAGACGCA
Band lengths:
350-692
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]