GgaINT0125293 @ galGal3
Intron Retention
Gene
ENSGALG00000002546 | Q90689_CHICK
Description
NA
Coordinates
chr17:8218072-8221656:+
Coord C1 exon
chr17:8218072-8218125
Coord A exon
chr17:8218126-8221602
Coord C2 exon
chr17:8221603-8221656
Length
3477 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGT
5' ss Score
10.43
3' ss Seq
CCTCTCCCTTTTCTTAACAGGGT
3' ss Score
11.79
Exon sequences
Seq C1 exon
GGTCCTCCTGGGAAGGATGGATTGCCTGGTCACCCCGGACAGAGAGGAGAAACC
Seq A exon
GTAAGTAGCCAGAACTCTTGGGCAGATCTTTAGCCCTGAGCCTCATCTTGCTGGCTGGTTTCTCTAAACCCTCCTGTGCAGATGGGGAGATGGGGCCACCAGTTTGCTCCCTGCAGAGGTCTGTGTGTCTCCAGCTGCATGGGGTGGTCTACAGGAAGCAACCCTCTTCTGAGCAGGATGGGTTGGGCTAATGATGATTTGCAGGACGGCCACACACCAGCCCCTCTCTCTGTCCCTGTGGTACACGTGGGGGTGATGTGCATTGCACACGGAGTGAATGTGAGTGGGGTGGTAGCGAGGCCAGGGAGTGGCACTGGAGCAGCTGGGGCTCTGTGTGCTGCAGGGGATGGGTGGGAAGATGCTGTAAGTCAGCACGCCAGGACCTGGCCTGTGCTGTGCACCCCACAGGCTCCCTACAGTCCTCCCAGGGGAAGGCTGTGCCTCGGCTCTGCTCTTGTAGCACAGTGGTGAAGCTGGGCTTTCTTCCCCACTCCTCTCTTTGGAAATGCGCAGGTGTAATGTTGCTGTTGTAACTCTAGGTCTGTGGGAACAGAGATGCAAGATGGGCACCCTCCTTCAAAAGCCAGCACTCAGCTTTCTGCACTCACTTGCCTTCACTCAGGGCTGTTTTGCTTTCTCAGGAGCCTGCCATAGGGAGAAATAAATAGCTTTCCCTTCTTTATGCACAGTGCAGCCAGCACCAAGAGCAGTAGCACAGCAGAGAAGTTACAGCCCCATTGCTGCAGTGCTTCTTTGGAGAGGAAAGCAGCTCCTGGCCAGGATCAGTGGTGCCATGGCTTTGCTCTAGCTTTTCTGCCCACACTGGTTATTGCAGCACACGCGTGTATCTGCCCTGCCTTAGCACACCAGCATCTCTGCTGACACCGCCTTTGAGCCAAAGCCACTCACAGGGCTCCCCCAGCACATCTCTCTTGCTGCCCCCCGAGGAGCAGCCCTGCTGCTGGGGCCCTTCTGTGTCGTACACAATGCTGCTTTGTCGATTTTAAAAGGTTTTGTTGCACAGATGTAATCAGTCTTTCTCACCAGAGGAGAGTGATGAGGCATGCGGAAGGTATGATGGCTGTCGTGCGTCTCTGGTGGTCTGTTTCGTGCACCTTTTTGCTTGAAGGATACCCTAAGCAAAAATGACTGTTCTGCCATGTATTCTTCTGCATGCAGTAATTAGTACCTCTCTGTTTGGCATTCTGGGGGATGTTGATTCTTTTTTCCTCAGCTGTTTACAACCCAGTTCATTTGCTGTTGTTGGTACATCACTCTCCCATCACTGCATGCTGCATGTTAGCAGATAGACTCTTTGTTCTGTGTTTATTCTACAGGAAAGAAACCCAACTTCCTCTACCCAGCTTTGCTTTTTTTCTCCACCGCCTTTCCTAGCAAATGAGCATTAAAGAGGCTTTGCACATTATGCATCTTTTCCCCTCAACTTATCACACAACAGTTTAATTAACTTGCCTGGCATTTGCTAAGCGAAGCAGTGCAAATACTGCTCAGTGCAACACCAGATATTTACTCACGCTCCGTGAGACTGACTTCGTGGTGATGGCTGTGGTATTTTGAAGGCACAGCCCTCACTTCAGGATTAACTTCAAGGTGGAGAGAAGAGTTCTCACCTGCCAGAGTCTGACTGTGACATTTACACTTCCTTTATTGAGTTATCTGATATATCCAGGACACTTAAGCTGAGATTAGAAAAAAAGCAGTAAAAATTTGTCTTGCATTGCAGCTCTCAACATTTGAGACTGGAATAAAGCATCACATTCCCAAGTCTGTATAAATGCGAGTGGACAATGGGCTATTTGGGGTCTGAAAGCGTTCCCTGGTAGTTGACCTCTGTCAGTTCAGGGGTAACTGCCCTATCACCATCAAATACATCCAGAAAACCGAGAATCTGTTCATTTTTGTCACAAGCAAACATTTTTGTCACTTTCCCCTGTGCCATCTTGGGTCACACAATCATAGACTGGTTTGAGTTGGAAGGCACCTTTAAGATCATGTCATTCCAACCCCCACGCTATAGGCAGGGGCACCTCCCTCCAGCCCAAATTGCTCACAGCCCCATCCAGCCTGGTCTTGACCCAGGCAGAAGCCCCTTTGTTTGTCCTCTTTCCTTACACAGAGCTGAAAAGGAAGGAGGTGGACATAAAACCAAATTAAATATCATTTCCACACCAGTAACCGTGCCAGCACACTCTGTGCCTTCATGCAAGAAAATCTAGACTTGAAGTCTGCTCGTCAAATAGCTCCCTTTAATTAACTTTTCATTGAGGAGCAACAAATCATGCTGAAGGATGCCAAATATTGGGCCGTATTAGATTTATTAAGACAGGGTCTAGAGAAGATAAGAAAAAAGAGCCCTAAAAGCTCTGTGCTCGTGGTTTAGAAAGGGTAACAGGAAAACCCTTTCTGCAGATAAAAAAGGGAAAGAGGTGGTTGAAATGTTTTTCTAAGATCAGGGTTTGAATGGTGCGTTCTTTTCACAGTGATGGTTTGCCATTTTCCCATTGGTGACATGATATCCTGCCATCTGCAGACAGCTAGAATAGCACAGGGTGGCTTTGTAGCATGACACAGTACCATTGGCTTTGGGACTTATCCCATCATCTTTTGTGGCAGTGAGAAAATAGCCTGGATGCCCTGAATGGCATATCTCAGGCTTGTCAGTGTGCTGTAGTAGGAATGATAATTAATGTGCTTTTTAAGGAGTGGCTTAGGAGAATTAAACAACTGCAGTGGTGATAGCTCGTTATTGTCACTCTTTTTGTGTCATTATAATTAGTTGCTGTGGAGTCTTCGTTGCTCATCGTTTGGCCATCCAGAGAGAAACACAGTTGTGATTTCTTTCAGCAGATGCTGAGGAAGGAAATAAAACTCAGCAGGGGTGGAAAGTGGCTCTGTCTGTGTCGGAGTGCAGGGTGGTCACCCAGGCCCAGAAGTCCTGCAGGGTGAAACCTGGAACAGGAGTCACAGCAGGGCTGGGAGCGGGAGAAGGGAAATGAATGGCTATGAAGAATTGCTCAGCGTTAAGGAAAATGAGCATTTTGACTTTTTAATAGCCATTTCCTCTGTAGGTTTTACGAGTGTAGCAATTTATATCTATATCTATATCCATATATCCGGCCAATCATTCAGCCAAACCACGGTAGCTCCATCACAACAGCAGAAGTGAACTGAAGATCTGATGGCTTTCCACCCAAACACCCATTCCCACCTTGGGGCTCCACTTAGAACCCTCCACTGGAGCTGAAAGGCCCATTTCTACCATTGTCTTTCCCCCTGTCAATGTATGAATACATATTTTGCATCTCCTGTTTGATTTCTTCTCCCTCCTGCCTTTGGGTGTCCATCCATGGTCAGTGGTTCTGCTGGGGGGCAGCAGGCAGGCAGTGCTCTGGGTCCCTCTGGGGAGCACCTCATGGCAGAAATGTCATCTCTTTGTCCTCTCCCTTTTCTTAACAG
Seq C2 exon
GGTTTCCAAGGCAAGACTGGCCCACCTGGCCCCCCTGGTGTTGTAGGCCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002546:ENSGALT00000039035:37
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(28.8=100),PF0139113=Collagen=PU(7.0=27.8)
A:
NA
C2:
PF0139113=Collagen=PD(13.5=66.7),PF0139113=Collagen=FE(25.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]