Sequence
atgc intronic sequence ATGC exonic sequencegtatggttttgaaatgctgagattagctgaggttctgaatttatttgcttctgctactgctaatataatatcttttttattatatattagcatgacataaggatagaaatagaatggctctatgactatattatagacctgatcatgtattcctttatgaactttcagGTAAGTGAGGATGAAATTACATTCTTAACTGGTGGTGATGATCCTTGTGATGACAATGTTGTGTTAAAGAAGCTTTTTCATCCTAACCTCAAGCTTTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g02340.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G29270.1 (Glycine max), 3'ss of exon 4
gtatggttttgaaatgctgagattagct--gaggttctgaatttatttgcttctgctactgctaatataatatcttttttattatatattagcatgacataaggatagaaatagaatggctctatgactatattatagacctgatcatgtattcctttatgaactttcagGTAAGTGAGGATGAAATTACATTCTTAACTGGTGGTGATGATCCTTGTGATGACAATGTTGTGTTAAAGAAGCTTTTTCATCCTAACCTCAAGCTTTTGG
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-----------gtatattatacgtggcttggagatttttatatgatctactt-tataaattccaat-tcacatttaattgttttttttccctcttgttttatgttgaaaatcagcat---tctgttagtaaacct--gatgtggt-attt-tttttttatgtttgtgcagATAAGTGAGGATGAGATTACATTTTTGACTGGTGGTGATGATCCTTATGATGATAATGTTGTATTAAAGAAGCTTTTTCATCCCAATCTCAAGCTTTTAA
upper sequence: Vv16s0022g02340.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G38570.1 (Glycine max), 3'ss of exon 4
gtatggttttgaaatgctgagattagctgaggttctgaatttatttgcttctgctactgctaatataatatcttttttattatatattagcatgacataaggatagaaatagaatggctctatgactatatta-tagacctgatcatgtattcctttatgaactttcagGTAAGTGAGGATGAAATTACATTCTTAACTGGTGGTGATGATCCTTGTGATGACAATGTTGTGTTAAAGAAGCTTTTTCATCCTAACCTCAAGCTTTTGG
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-----------------gtatattatatgtggcttttatatgatctactt-tataaattccaattcacatttaattttgttgtttttcctcttgttttattttgaaaatgagcattcaatcattttccccttagtaaacctgatgtggtatttttttatgtttatgcagATAAGTGAGGAAGAGATTACATTTTTGACTGGTGGTGATGATCCTTATGATGATAATGTTGTATTAAATAAGCTTTTTCACCCTAATCTCAAGCTTTTAA
upper sequence: Vv16s0022g02340.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G32530.1 (Glycine max), 3'ss of exon 4
gtatggttttgaaatgctgagattagctgaggttctgaatttatttgcttctgctactgctaatataatatcttttttattatatattagcatgacataaggatagaaa---tagaatggctctatgactatatta-tagacctgatcatgtattcctttatgaactttcagGTAAGTGAGGATGAAATTACATTCTTAACTGGTGGTGATGATCCTTGTGATGACAATGTTGTGTTAAAGAAGCTTTTTCATCCTAACCTCAAGCTTTTGG
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------gtataacata-tgtgagcaa--gatattcttcataaatgctaatatactaatccccaattaa-atttactctctgctatactgtttaattttgaaaataagaattctgttatccctttctattttccttaatagagttgacttggtatcttcctatgtgtgtacagATAAGTGAGGATGAGATTACATTTTTGACTGGGGGTGATGATCCTTATGATGATAATGTTGTTTTGAAGAAACTTTTTCACCCAAATCTCAAGCTTTTAA
upper sequence: Vv16s0022g02340.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G27430.1 (Glycine max), 3'ss of exon 4
gtatggttttgaaatgctgagattagctgaggttctgaatttatttgcttctgctactg--ctaatataat-atcttttttattatatattagcatgacataaggatagaaat---agaatggctctatgactatatta-tagacctgatcatgtattcctttatgaactttcagGTAAGTGAGGATGAAATTACATTCTTAACTGGTGGTGATGATCCTTGTGATGACAATGTTGTGTTAAAGAAGCTTTTTCATCCTAACCTCAAGCTTTTGG
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------gtataacata-tgtgaccaa--gatattcttaatg-atcttctaatactactagactaatccatttaaatttactctactatattgtttaattttgaaaataagaatcctgttattcctttctattttccttaatagtgctgacatggtatcttcctatgtatgtacagATAAGTGAGGATGAGATTACATTTTTGACTGGTGGTGATGATCCCTATGATGATAATGTAGTTTTGAAGAAACTTTTTCACCCAAATCTCAAGCTTTTAAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|110378624|gb|EC943764.1|EC943764EST: CTGCTAGGAAGGGAATAATGAGTGTATGGGACAAAGCAGATATCATTAAG GTAAGTGAGGATGAAATTACATTCTTAACTGGTGGTGATGATCCTTGTGAT
genomic: CTGCTAGGAAGGGAATAATGAGTGTATGGGACAAAGCAGATATCATTAAGgtatggtttt ... gaactttcagGTAAGTGAGGATGAAATTACATTCTTAACTGGTGGTGATGATCCTTGTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggctctatgactatattatagacctgatcatgtattcctttatgaactttcagGTAAGTGAGGATGAAATTACATTCTTAACTGGTGGTGATGATCCTTGTGATGACAATGTTGTGTTAAAGAAGCTTTTTCATCCTAACCTCAAGCTTTTGG
acctgat putative branch site (score: 4)
ctttc putative PPT
tatgactatattata TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggttttgaaatgctgagattagctgaggttctgaatttatttgcttctgctactgctaatataatatcttttttattatatattagcatgacataaggatagaaatagaatggctctatgactatattatagacctgatcatgtattcctttatgaactttcagGTAAGTGAGGATGAAATTACATTCTTAACTGGTGGTGATGATCCTTGTGATGACAATGTTGTGTTAAAGAAGCTTTTTCATCCTAACCTCAAGCTTTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT