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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGGCTTTGGCACAAAAGGTTCCTGAGGATGGTTGGACAATGCAGGATGGTACTCCATGGCCCGGGAACAATGTCAGAGATCATCCCGGAATGATACAAgtgagtactatgttatgatgcaatcttggtcttctgtgtagattgaaaatgctttgtcaacatggcatgtttgtacgagtttaagtgttcaactgtgatgctattctacag

Basic information

species Glycine max
transcript GLYMA16G28080.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G28080.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv18s0072g00370.t01 (Vitis vinifera), 5'ss of exon 8
GGTGGCTTTGGCACAAAAGGTTCCTGAGGATGGTTGGACAATGCAGGATGGTACTCCATGGCCCGGGAACAATGTCAGAGATCATCCCGGAATGATACAAgtgag--------tactatgttatgatgcaatcttggtcttctgtgtagattgaaaatgctttgt-caacatggcatgtttgtacgagtttaagtgttcaactgtgatgctattctacag-------------
|||  || |||| || ||||| || ||||| |||||||||||||||||||| ||||||||||| |||||||||||||| || ||||| |||||||| || |||||        | || | ||    |||| || |||  || ||||       |  |||| |  | |   |     |   |       ||| ||   | ||  |   |  |  ||||                
GGTTTCTATGGCCCAGAAGGTCCCCGAGGAAGGTTGGACAATGCAGGATGGGACTCCATGGCCTGGGAACAATGTCAGGGACCATCCTGGAATGATCCAGgtgagggggtgatttctttcttcgagtgcattcatggatttttgtgcctgagcagcatgcatcttgctggaccttctacatactgagatttgagacattaaaagatttttttctctatttttgccttgcacag
















Mapped 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|193682225|gb|FK622959.1|FK622959
EST:     CCCGGGAACAATGTCAGAGATCATCCCGGAATGATACAA                         GTTTTACCTTAGGTACAAGAATGGTGTTCGTGACATTGAAGGAAATGAATT
genomic: CCCGGGAACAATGTCAGAGATCATCCCGGAATGATACAAgtgagtacta ... tattctacagGTTTT-CCTT-GGT-C-AGAATGGTGTTCGTGACATTGAAGGAAATGAATT
EST: gi|193727381|gb|FK663255.1|FK663255
EST:     CCCGGGAACAATGTCAGAGATCATCCCGGAATGATACAA                         GTTTTACCTTAGGTCAGAATGGTGTTCGTGACATTGAAGGAAATGAATTAC
genomic: CCCGGGAACAATGTCAGAGATCATCCCGGAATGATACAAgtgagtacta ... tattctacagGTTTT-CCTT-GGTCAGAATGGTGTTCGTGACATTGAAGGAAATGAATTAC
EST: gi|193303195|gb|FK267951.1|FK267951
EST:     GTACTCCATGGCCCGGGAACAATGTCAGAGATCATCCCGGAATGATACAA                         GTTTTCCTTGGTCAGAATGGTGTTCGTGACATTGAAGGAAATGAATTACCT
genomic: GTACTCCATGGCCCGGGAACAATGTCAGAGATCATCCCGGAATGATACAAgtgagtacta ... tattctacagGTTTTCCTTGGTCAGAATGGTGTTCGTGACATTGAAGGAAATGAATTACCT
EST: gi|193569713|gb|FK524448.1|FK524448
EST:     GTACTCCATGGCCTGGGAACAATGTCAGAGATCATCCCGGAATGATACAA                         GTTTTCCTTGGTCAAAATGGTGTTCGTGACATCGAAGGAAATGAATTACCT
genomic: GTACTCCATGGCCCGGGAACAATGTCAGAGATCATCCCGGAATGATACAAgtgagtacta ... tattctacagGTTTTCCTTGGTCAGAATGGTGTTCGTGACATTGAAGGAAATGAATTACCT
EST: gi|193658419|gb|FK605918.1|FK605918
EST:     GTACTCCATGGCCTGGGAACAATGTCAGAGATCATCCCGGAATGATACAA                         GTTTTCCTTGGTCAAAATGGTGTTCGTGACATCGAAGGAAATGAATTACCT
genomic: GTACTCCATGGCCCGGGAACAATGTCAGAGATCATCCCGGAATGATACAAgtgagtacta ... tattctacagGTTTTCCTTGGTCAGAATGGTGTTCGTGACATTGAAGGAAATGAATTACCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGGCTTTGGCACAAAAGGTTCCTGAGGATGGTTGGACAATGCAGGATGGTACTCCATGGCCCGGGAACAATGTCAGAGATCATCCCGGAATGATACAAgtgagtactatgttatgatgcaatcttggtcttctgtgtagattgaaaatgctttgtcaacatggcatgtttgtacgagtttaagtgttcaactgtgatgctattctacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA