GgaINT0005495 @ galGal3
Intron Retention
Gene
ENSGALG00000003137 | FAM101A
Description
NA
Coordinates
chr15:4777456-4779445:-
Coord C1 exon
chr15:4779336-4779445
Coord A exon
chr15:4777790-4779335
Coord C2 exon
chr15:4777456-4777789
Length
1546 bp
Sequences
Splice sites
5' ss Seq
TAGGTACAG
5' ss Score
4.67
3' ss Seq
TACCTTGTTGTCCTCTCTAGGTG
3' ss Score
12.24
Exon sequences
Seq C1 exon
ATGCCTTACCTGCTCCTGAACCCGTCCGTGTTGGAGATAAGACCTCGAATGTACCCTGTGTTTTTTGGAGAAAGCATTGAGGTCAACCCCGAGCCCATGCAGGAAATTAG
Seq A exon
GTACAGATGGTATTGGGTTGGGTGAGTGGGGGTGTCTGTCCTTTTCTTGGTGCTTTTTCTTCTCCAAAAAATTAAATGTGATTACAAATGGGAGTCATGGTTATTTGGATAGGAAGGGAGAGAGAGACAGATAGGAGGGTAACACCTGAATTAAAGACACTGACAGCAGCAGAGGTGGAGAAGGAGGTTGTAAGAGAAAACTTTCCTTCCAAGGACAGCTCATTTCCAAGGCAGTAAGAGAAAACTGAGACCTTCTGTAGGCTTGCTGGTCTACACTGTGCCCTGCTGACTTGTATCCTCAGCTACACCATTAGAATTGGTACTTGTTTTTGTTAGCCCTTGCAGCAGAGAAACCAACACTAGATGAGTTCAGAAATACAGAACCATCTCCTCCTCATGACAGGGTGGTCCCTCCAGCCAGTGATTGAGGTATTCTGGCCTCTTGTGGAACTGGAGGCAACGGCCTGTGGATAAACACTGTTCTGCTCTTCTTTTGCTGGTGTGGAATGTACTCTGCAAACAGCATGGAGCACAGTTACACACGGCTTAGGGCAGGGATGGTGGGAGGACTAAACCCAATTCCCACCCCCCCCTCAACCTATGCGAACGTCTCTCTGGAAATGTACCCCAGTAAATCTCTGCTTGCTGAGGAACTGCTGGAGGGCATGTTTTTACGGTGATTACATTGGAGTCTTGTTTTATGTGCACTGAATGACTTGCTTACACCCTAGCTGTGCAAAATACATTACAGCAGCTCAGATTACATACAGTGCACAATCAGTCAACCCCCCTCCGGGTAGAGGTAATGACAAGCACACACCCAGCTTTTAATCTTTTTTTTTTTTTTTTTTTTTTTTTTTAACGTGGAGCTGCACATTCCTTGGCTGCTGAATGCCAGAGCAGCATTTGGGGAGTGGGAAAAACAACTGAAAGTCCTACAGCTCGCAGTGGCCAAGAATTCTAGGGAAAGCACTCTGGCCTGGTTTCCATCCATCCCTTCTGGAGATGCAGCACAGTGACATCCTGTGTTTCGTGGGCTATTCATTTAAGAGCTGTTAAGACGGCTACTTCTTTTGTGTCCAGCCACAGTCCATAGCATCCCCTTGCTTTACAAGCTTGGCTCTTGCTTGTATTTTTCTGTAGGCCCCAATGAGCAGCTTCACTCCTCATCTCCCAGCATAAAGCTGATTTTGGCTACCTTTGTGCTCTGATGGCTCAGTGTAAAGAAAAAAGAGGAATACAGAAGAAAAAGAAGGCTGCTTGGAGCCAGTGCAGCAAGGTCTTTTCTGTCCTGGCACAAACATGCAGGCTAAGTTGACTGCAGAAATGCTGAGGTGGCTTCACAAGGTGGGATTCTGCCAAGATGCACCCAGCAGGAAGGAGTCCTCTTGGCCCTCTGCTTTGGGTTGTAGGGTTTACATCTGTTCTAGTGTCTGTGCACTAAGAGAGCACAGATGTTCCCAGCTCCAAAGGGTTGAGAAGAGTTCTGTTTATCCTCTTTCCTTTGCTGCCTGGGCTGGTTTTGATACCTTGTTGTCCTCTCTAG
Seq C2 exon
GTGTAATTCCGAGGTGAAGTATGACTCTGAGAAGCATTACAGGGATGACATTATCTACGGCCCCATCCCCACTGTCACCACCTACAGTGAGACAGTCATTGCTGCGCCCAATTGCACCTGGCGGAACTACAAGTCCCAGCTGATCTTCGAGCCCCGCCAGAAGCCACTGAGGTTTCAGAGCACGACCATCATTTTTCCTAAGCGTGCCAAGAACATTTACCGGACCACCCTCAACTACAGCTTGGGCTGTGCCAAGCGCTGGTTTTCTTCCAGCGTGCAGCTGGAACTCTGTGAGGAAACCAGCCCATGCGTCATCTACAGTGAGACCCTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003137:ENSGALT00000039587:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF150681=FAM101=FE(18.7=100)
A:
NA
C2:
PF150681=FAM101=PD(50.8=87.5)
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:
AAAGCATTGAGGTCAACCCCG
R:
CATGGGCTGGTTTCCTCACAG
Band lengths:
349-1895
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]