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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTGCCATATCAGGAGCTGTTTTTTCCATTGAAGTGTTTGAATCCTCTCTTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgctcagctttcagggcaaaggacaaaacttaaatgcagttgttcaattagaattggagttttaccgtagtattttgcgtaatcctttgatgca...

Basic information

species Glycine max
transcript GLYMA11G08540.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G08540.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv00s0264g00020.t01 (Vitis vinifera), 5'ss of exon 2
TGGTGCCATATCAGGAGCTGTTTTTTCCATTGAAGTGTTTGAATCCTCTCTTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgctcagctttcagggcaaaggacaaaa--cttaaatgc-agttgttcaattag--aattggagttttaccgtagtattttgcgtaatcctttgatgca
||| || ||||||||||||||||| || ||||| || |||||||| |||||||||||||||||||||||||| || |||||||| ||| |  | ||| |||||||    |  ||||   |  | |  ||  | |  ||| ||||  ||  | | | || |  ||||   |  |    || | |    |   |    | |      
TGGAGCAATATCAGGAGCTGTTTTCTCTATTGAGGTCTTTGAATCTTCTCTTGTTCTCTGGCAATCTGATGAGTCAGGGATTGGATGTCTGCTCTACCTGgtgagcaatttggcttcttgccccattgatcatatgctttaatgttaggggataagttggtgaattatggactctgggtgggaaaaggaagagaaatata-----
















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|208252824|gb|GE053010.1|GE053010
EST:     ATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: ATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|207751071|gb|GD723512.1|GD723512
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGCGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|208184330|gb|GD983756.1|GD983756
EST:     TTGTTCTCTAGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|208284955|gb|GE086931.1|GE086931
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|207737211|gb|GD713603.1|GD713603
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|193450337|gb|FK413955.1|FK413955
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTAT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTAT
EST: gi|192309482|gb|FK000956.1|FK000956
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|209720570|gb|BW677305.1|BW677305
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGGGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|208340427|gb|GE136185.1|GE136185
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|208067076|gb|GD866858.1|GD866858
EST:     TTGTTCTCTAGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|208333118|gb|GE127409.1|GE127409
EST:     TCTACTAGGACAAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TCT-CT-GG-C-AATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|193545485|gb|FK499540.1|FK499540
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|207799811|gb|GD768768.1|GD768768
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|193576595|gb|FK533706.1|FK533706
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATATTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|208330542|gb|GE131367.1|GE131367
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|207825262|gb|GD795559.1|GD795559
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTAACTGAGTGGGAGACTTGTGCGTGAGAGGAT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTA-CTGAGTGGGAGACTTGTGCGTGAGAGGAT
EST: gi|193529103|gb|FK486086.1|FK486086
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|193431865|gb|FK397793.1|FK397793
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|207790152|gb|GD760001.1|GD760001
EST:     TTGTTCTCTGGCAATCGGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|193533400|gb|FK493752.1|FK493752
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGAT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCA-GCTTACTGAGTGGGAGACTTGTGCGTGAGAGGAT
EST: gi|208182748|gb|GD980574.1|GD980574
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|207780176|gb|GD753105.1|GD753105
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|193597508|gb|FK551924.1|FK551924
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTG
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTG
EST: gi|208031559|gb|GD831725.1|GD831725
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|193322444|gb|FK288316.1|FK288316
EST:     TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: TTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
EST: gi|13478239|gb|BG507793.1|BG507793
EST:     AATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTG                         ATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT
genomic: AATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgct ... agttatacagATTGATGTTATTGCCAGCTTACTGAGTGGGAGACTTGTGCGTGAGAGGATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGTGCCATATCAGGAGCTGTTTTTTCCATTGAAGTGTTTGAATCCTCTCTTGTTCTCTGGCAATCTGATGAATCTGGGATTGGCTGTGTCTTATACTTGgtgagttgctcagctttcagggcaaaggacaaaacttaaatgcagttgttcaattagaattggagttttaccgtagtattttgcgtaatcctttgatgca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggacaaaa