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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCCTCACAAGTGCAGTTCCACAGATAAAGCCTGGTTTTGATCCAACCAAAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattatagtttctgcattatgcatttatgcttaagttaacctattacagtttctgcattatgcatttatgcttaagtaattcttttaaatttatcccccttttgattcatattttaattttaatgattttttcatattag

Basic information

species Glycine max
transcript GLYMA07G15960.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G15960.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv08s0007g00530.t01 (Vitis vinifera), 5'ss of exon 2
AATCCTCACAAGTGCAGTTCCACAGATAAAGCCTGGTTTTGATCCAACCAAAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattatagtttctgcattatgcatttatgcttaagttaacctattacagtttctgcattatgcatttatgcttaagtaattcttttaaat-ttatcccccttttgattcatattttaattttaatgattttttcatattag
||| ||||||||||| || ||   ||| || ||||| ||||||||||| ||||| ||||| |||||||| |||||||| || || || | |||||| ||||||      |||||     ||| |    ||||    || ||    | |    ||||||    | |||  ||||| | ||    |||||||  || |||                                               
AATTCTCACAAGTGCTGTGCCTAGGATGAAACCTGGGTTTGATCCAACTAAAGGTCAAAGGCCAGAGTTTTATTTTGAAGAAGGAGCCTTTCCTGAGCAGgtaactacttagttatctgattttaggattata--gaatttctgttgtccatgtttct----tttgc-cttatgttgaaagttttcttttttatgttag----------------------------------------------
















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|4313549|gb|AI460668.1|AI460668
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|8285026|gb|BE022585.1|BE022585
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|192323796|gb|FK015607.1|FK015607
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|193713458|gb|FK654485.1|FK654485
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAA-TCAAATAGATGTCG
EST: gi|193519195|gb|FK474960.1|FK474960
EST:     AGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|207686505|gb|GD669305.1|GD669305
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|193410230|gb|FK377141.1|FK377141
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|6095017|gb|AW119684.1|AW119684
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|31473809|gb|CD415837.1|CD415837
EST:     AAGGACNAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGNCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|193316371|gb|FK282731.1|FK282731
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAAGAAAAAATCAAATAGA
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCA-GAAAAA-TCAAATAGA
EST: gi|15202882|gb|BI425650.1|BI425650
EST:     AAGGACGAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGT
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGT
EST: gi|120530205|gb|EH258339.1|EH258339
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|192305319|gb|FG994015.1|FG994015
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|209706218|gb|BW680909.1|BW680909
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|31475468|gb|CD417496.1|CD417496
EST:     AAGGACNAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|15288058|gb|BI471949.1|BI471949
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|208257380|gb|GE056235.1|GE056235
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|20207666|gb|BQ133755.1|BQ133755
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|15204650|gb|BI427418.1|BI427418
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|15204560|gb|BI427328.1|BI427328
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|208327992|gb|GE119868.1|GE119868
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|193483298|gb|FK451085.1|FK451085
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAA
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAA
EST: gi|58016121|gb|CX702863.1|CX702863
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|192333007|gb|FK024656.1|FK024656
EST:     TTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: TTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|209725254|gb|BW672729.1|BW672729
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAGCAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|193320393|gb|FK286432.1|FK286432
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTAGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
EST: gi|193574114|gb|FK528802.1|FK528802
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAA-TCAAATAGATGTCG
EST: gi|209710151|gb|BW658900.1|BW658900
EST:     AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAG                         GTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG
genomic: AAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattat ... ttcatattagGTTGACTGGATTGGGCAGAAAAATCAAATAGATGTCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATCCTCACAAGTGCAGTTCCACAGATAAAGCCTGGTTTTGATCCAACCAAAGGACAAAGACCAGAGTTCTATTTTGAGGATGGGGCATATCCTGAACAGgtactattatagtttctgcattatgcatttatgcttaagttaacctattacagtttctgcattatgcatttatgcttaagtaattcttttaaatttatcccccttttgattcatattttaattttaatgattttttcatattag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG