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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTGCGGTGAAGGAGCCTTTGGATCTCATTAGGCTCAGCCTCGACGAGCGTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttcaatctttctttgtttttttttcctccaaatttctctgttgctttcttttaaactctttttgtgactaccctttgacacataggatgtttt...

Basic information

species Glycine max
transcript GLYMA02G09090.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G09090.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os01g64690.1 (Oryza sativa), 5'ss of exon 1
GAGTGCGGTGAAGGAGCCTTTGGATCTCATTAGGCTCAGCCTCGACGAGCGTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgta-------attcttcaatctttctttgtttttttttcctccaaatttctctgttgctttcttttaaactctttttgtgactaccctttgacacataggatgtttt
||  ||||||||||||||  ||||||| || |||||||||||||||||||| ||||| ||||| ||| | |||||| | ||||| || ||||| || || |||         || |   |||     | || ||| ||| || || ||  |   ||||||    ||   |  | | ||||           | ||   | ||     
GATCGCGGTGAAGGAGCCGCTGGATCTGATCAGGCTCAGCCTCGACGAGCGCATCTACGTCAAGCTCAGGTCCGACCGCGAGCTCCGCGGCAAGCTCCATgtatgtaaacgctcctgcttctcctcctattgtttgttcttcgaatttcgtgctttgcttgtggttggcccttctctgtggagggga---aatacggggaata----

upper sequence: GLYMA02G09090.1 (Glycine max), 5'ss of exon 1
lower sequence: AT1G76860.1 (Arabidopsis thaliana), 5'ss of exon 1
GAGTGCGGTGAAGGAGCCTTTGGATCTCATTAGGCTCAGCCTCGACGAGCGTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaa---ttcttcaatctttctttgtttttttttcctccaaatttctctgttgctttcttttaaactctttttgtgactaccctttgacacataggatgtttt
     | |||| ||||||  | ||||| |||||||| || ||||||||| | ||||||||||| ||||| || ||| | || ||||| ||||| |||||||||    |||||    | | ||| ||   ||   | |   | |   |    | ||   ||  | ||    || ||    |   | | ||   ||   ||    
AGCCACCGTGAGGGAGCCACTAGATCTGATTAGGCTGAGTCTCGACGAGAGAATCTATGTCAAGCTCCGGTCAGACCGCGAACTTCGCGGCAAGCTTCACgtacgttttcttgtgccctgcttagtaccttgaacttgtcactacttaaaatactcg-ttccacacatagttcgtttgaattttgtaac-tttattttgccg-

upper sequence: GLYMA02G09090.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv18s0072g00710.t01 (Vitis vinifera), 5'ss of exon 1
GAGTGCGGTGAAGGAGCCTTTGGATCTCATTAGGCTCAGCCTCGACGAGCGTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttcaatctttctttgtttttttttcctccaaatttctctgttgctt--tcttttaaactctttttgtgactaccctttgacacataggatgtttt
||| || ||||||||||| ||||||||||| || || |||||||||||||||||||| ||||| ||||| |||||| | || || || ||||||||||| ||| || |    | | ||| | |||||||||  | |    | |      | ||   ||||| |||  ||||| |   | |  |      | |    |||| |
GAGCGCAGTGAAGGAGCCGTTGGATCTCATAAGACTTAGCCTCGACGAGCGTATCTACGTCAAGCTCCGCTCCGACCGTGAACTCCGAGGCAAACTTCATgtatttttctcctttctctctctttttttttttttccttctacatatgcgtttaaccttttcaacgtttttttt--ttcctttaaatttcttttcctgttat

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|208220332|gb|GE017636.1|GE017636
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|193649776|gb|FK595415.1|FK595415
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAA
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAA
EST: gi|298190498|gb|HO032619.1|HO032619
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|207749958|gb|GD719108.1|GD719108
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGTGATGTTGAAGAAATTGTT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|192297747|gb|FG989608.1|FG989608
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|7588632|gb|AW704423.1|AW704423
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|192305383|gb|FG994261.1|FG994261
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|192334624|gb|FK025857.1|FK025857
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|7686196|gb|AW756844.1|AW756844
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGTGATGTTGAAGAAATTGTT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|8827162|gb|BE210892.1|BE210892
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|192326439|gb|FK017711.1|FK017711
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGTTTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|192329675|gb|FK022941.1|FK022941
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|192324193|gb|FK017924.1|FK017924
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|193633212|gb|FK578808.1|FK578808
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGTGATGTTGAAGAAATTGTT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|207735087|gb|GD712030.1|GD712030
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGTGATGTTGAAGAAAT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAAT
EST: gi|24135733|gb|BU926243.1|BU926243
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|207708143|gb|GD690357.1|GD690357
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGTGATGTTGAAGAAAT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAAT
EST: gi|151402513|gb|EV272326.1|EV272326
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|208047685|gb|GD843886.1|GD843886
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|31476082|gb|CD418110.1|CD418110
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGNCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|18040528|gb|BM308822.1|BM308822
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|193425577|gb|FK386890.1|FK386890
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGTGATGTTGAAGAAATTGTT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|208306259|gb|GE104408.1|GE104408
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
EST: gi|151406944|gb|EV276759.1|EV276759
EST:     GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCAC                         GCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT
genomic: GTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttc ... gggtttgtagGCTTATGATCAGCATCTTAATATGATTCTTGGCGATGTTGAAGAAATCATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTGCGGTGAAGGAGCCTTTGGATCTCATTAGGCTCAGCCTCGACGAGCGTATCTATGTCAAACTCCGTTCCGACAGAGAGCTTCGTGGCAAACTTCACgtaattcttcaatctttctttgtttttttttcctccaaatttctctgttgctttcttttaaactctttttgtgactaccctttgacacataggatgtttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcctcc