GgaINT1015125 @ galGal4
Intron Retention
Gene
ENSGALG00000029090 | Hoxb-7
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:R4GGP8]
Coordinates
chr27:3586132-3589844:+
Coord C1 exon
chr27:3586132-3586580
Coord A exon
chr27:3586581-3589198
Coord C2 exon
chr27:3589199-3589844
Length
2618 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
AATCTATGTTTCCTTCCCAGGCA
3' ss Score
9.23
Exon sequences
Seq C1 exon
GTAAAACCGACACTAAAACGTCCCGACCTACAAATCACCCGGCCAAATTATGAGTTCATTGTATTATGCGAATGCTTTATTTTCTAAATATCAAGCCGCAAGTTCGGTTTTCCCATCCGGAGTCTTTCCCGAGCAAACTTCTTGCGCTTTCGCCTCCAACACCCAACGAGCGGGCTATGGGGCCGGCTCCACGCCTCCCTTCGCCTCCTCCATGCCCGGGCTGTACTCCAGCGGCAGCGCCGTGCACCCCCAACCCCCCGGCATGTACTCCTCGGGGTACGGCCTGGAGCCCGGCTCCTTCAACATGCACTGTTCCCCCTTTGAGCAAAACCTCTCCATGATGTGCCCGGGAGATGCCTCCAAGCAGAACTGCAACAAAACGGACCAGAGGGATTCAGATTTGCAAAGCGACAGTAACTTCCGCATCTACCCCTGGATGAGGAGCACAG
Seq A exon
GTAAGCGCAATCCTCCTTAAAGAAAGGAGCCCGGGAGGGGTGGGGGGAGTGTAAATTATTTTATGGCGTGCGCGGGGGGTGGCGGAGGGGGAGGGGAGGGGGGAATTGTCCCCAACTCCTTTCATGACGTTTCACCGAAAACGAATCTCCGGCTTCAAAAGAGAGAGAGAGAGAGAGACGAAACCCCCGCCATAAAGCCATCCTTTTAGCTTTAAATATTTATTAGTGGTGCTGGGGCTGTGTGTGTGCCGTGCAAAAGGCAGTTTGTCTTAGAGGGGACAGACAGAGCTGCAGGAATAATGGCCATCCCCTTCTTCTCCTATATTTACAGGATGAAGATCGCGCTACCCCTGTGTAGATGTAGATATAGATTCCGAAATAAACTATTGATGGGAGGTGCTCGCAAGCTCGTTTTGTTTCCTCTCAGGCTGCAAACCCTTCCATTGCCAGCCCCTCGCCACCGCGTCCCAGACACCGCGATTAAGCCTAGCGTGTTGCTATCCGAAAGAGCAACACATCATCCTTGGCTCAATTAAAAGCCCTGCTCACAAAAAAAAAAAAAACCCGCAGACATTCCGGCCGGGATCCGGCTGTAGGGACGGATCCAGGGACTGCAGGGTGACCTTCCAAATAACCCCAGGCAGGATCCCAAAGCGGGGAAACCCACGCAGGGCTCCGCTCGTGGGGGCGGGCGGGGGACACCCAACGACGGGACGCTGCTCTGCCTTCATCCCCAGTCGTGTTCCGTCTCAGTGTCAAGTAACATTTCCTAAATATCCCGTTCCCATCGCACGGGAGCGCCTGGGACGCGGGGAAGGAGCGTCTGCGGCCGGGATTCCCTTCGCTCCGGGCCCCACCCGGCGTACTCCCGGTGCTTCGGACACCCGTGGATGTGTTTATAGCCGGGTGACCCTGGCACGGGGTTGGGAAGAGCTGTCCTGCCTGGGAACGAGGAGAACACATGAGCTCATGTCTCCGGCGGCCCCGGTGCCAGATTGCAACTTGAGAGCATCCCTGAGAGCAGCCAAATCTTCGGAAAGTGTCGTGTTAGTAAACTTCGGGGGCGAGAGGAGTGCGGGCCAACCTCCTGCATAGCGAGGGGAAAGGAAAACAGAGGGGCAGCCAATGCTGGGCGGCTTCACAGGCAGGAGGTACCCTCGCACTGATTTGGTGGTCAGTCCTTTCCATTACCTGCTCCATAATTCATTCACTTTTAGAGTTGATTTATCAAAGACCAAATATTTCTGGTCGTAAACACTTCGTCTCTCCTTTTATCCGGCTTTAGATTTAAGAAGCCCTCCACTCCCCACCCCCGCACAACCCCCCCACCCACCCACCCCTTTCAGCATGTGACGCTGCGAGGAACAGCGTTAGGAGGGTCTGGAAGAAGGGCAAACGGGGGGACCACGCACTCCCGAACCTGGATGCTCTGCGATCTGCTGTGCCTAAAACCAGAGAAACTCGACCTCGGGGATCCCTCCTCCAGCTCCTGATGCCCACTGTGCGATCGTGGTTGTGGAATTTCATCAGCGAGCAGAGATAGAGTTGTCATCCCTATTCAGCAGCAGTTTATGGCTCTCCCTCAGCAGATTTTACAACCCACATTCCACGACCTGCAGATTCGTACTTTACAGCTAGCACGGCTATTTTGCTCTTTTTCCTCCCTCCTTTTAATGACTGGACCTTTTCTTCCTTTAAAAAGAAAAAAAAGGGAAAAAAGGGGGGGGGGGGGGAAGGAGGAAAGAGGAGTCTGGTGGAATGTGTGGAGGAGAGGCCGAGGGCTGCTGTCCGCCATCCCCACTTCTCCACGAAAGAATACATTATACTGTAGATAGACATCGCATTTACACAGAAAATAGAGAGGGATCACAAGCGTTATATTGTGCCATTATTCCCACTTGGACTCAGGAAACGTCGGGTTGGAGAGGGGCGGTGGAATTACGGGTCGGGCCCCTTACAGACCCTCTCCAAACAGCGGAATAGCGGCGCAGAGGCTGCGATAGAGTTGAGGCTCTTCCCATGTTGTGCACACCCGGGGGTAGCAGCCCCCTCGTCAGCCACAGCCGAGCAGAAGCCACCGCTGAGCCCAAAACATTCCCTGAAATAATTAAGACCATCACACACCTTCCCAAGCAAGCAGCCCGATGACAGCTTTAGGAGAGGACAAATAGTTGGGGTTGTGGAGGTAGCAGGCGCAGCACTCGCTGGGTTTTTTTTCGTGTGTGTGTGTATTTATCCGTCCTCCATCCGAAGTTTGTGGTGTTTAAGCAGAAATTAAAGCAGGAGCTGAGCGCCCTGATAGGAGAGCCGGAAACTTGGTGAAGTTTGCAGCTCCATCCCGCTCGGCTCTGAGACACAGCGGGGCTGCATACGGAAAATCACCGCTCGCCTCTCCGAGATGAAGGGCAAGGAAACTCACGATGTTTCGGGGCCGAGAATAGGGAGGGTGAGGTAGAGAAAGCTCCTGGAGCAGAGAGTTCGTATTGCGAATGAGGAGAAAGGTAGGATCAGGTTGTGCGCTTTGTTTTGTGGAGATGAAGAGGAACGGGTGTTACTGGGCATAAAAATATACCTCCCCCCCCAAACCCAACTGATCCGAATCTATGTTTCCTTCCCAG
Seq C2 exon
GCACGGATAGGAAACGCGGCCGGCAAACCTACACCAGGTATCAGACCCTGGAGCTGGAGAAGGAGTTCCACTACAACCGCTACCTGACGAGGAGGAGACGCATTGAGATCGCCCATGCTCTGTGTCTCACGGAGAGACAGATCAAAATCTGGTTCCAGAACAGGCGCATGAAGTGGAAAAAAGAAAATAAAACTGCCTGCTCCGGCTCCAGCAGCCAGGAAAAGGCAGACGTGGAGGACGACGAGGAGGAATGAAAAGGACAAAAGGTGGATCCAGGAAACGTGAAAGCTCACGGGAATAGGAAAAAGAAAGGGGAAAAAACCACCCAGAAAAGACTATATACTAAAATAGATCAACGTTAAGTGCATAAATAATTAAAAACTTAGGAATGATACGTTGTGTTTCCTGACACTGAAAAAAAAATACTACCTATATTGAAGTTTTTTTTTTTTTTTTGTACAATAGAATGAATATCTACCTATTAAATGTGGCTTTAGAGTCAGAATAGACACCTTTTTTTTCTATGTGAGTCTCCCTATAGTCCAAGTAATTTGTAAATCTCCGTTTGTACTTCGCTGTGTACTTTTTTGGTATGAAGTAACGTGGTCGTGTTTAGCACCTTTAATTTAGAAGATGTGACCTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000029090:ENSGALT00000045155:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.175 A=NA C2=0.381
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=67.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]