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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagataaaatgtctattttatcttggtctgtttgcctttcacttcgcatcacgccatcaatcatttgagcaacttcctggtaaatatgttgtgtacttatgttgtaacttgttaaactaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATAATTGTTACTACCATTGGTGGTAAAAATGGCCAGCCAAAGCAG

Basic information

species Glycine max
transcript GLYMA10G01280.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G01280.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0005g02100.t01 (Vitis vinifera), 3'ss of exon 2
gtaaagataaaatgtctattttatcttggtctgtttgcctttcacttcgcatcacgccatcaatcatttgagcaacttcctggtaaatatgttgtgtacttatgttgtaacttgttaaactaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATAATTGTTACTACCATTGGTGGTAAAAATGGCCAGCCAAAGCAG
                                    |    |||  | |   |    | ||| |  ||        |  ||  |  || | ||||      || ||  | ||   |  |     || ||||||||||||  |||||||| ||||| |||||||| || || || ||||||||||| || || ||||| || |||||||||||||||||||||
------------------------------------gtggatcatgtggttcctttgcttcattttttcttcttcttctctttttgatttattgttgggccatcttaaatctgtcttgatatcttgtagGAAATGGAAGATACTGTGGTGGATGGTAATGGGACAGAGACTGGTCATATAATTGTAACAACTATTGGAGGGAAAAATGGCCAGCCAAAGCAG
















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|207801144|gb|GD774161.1|GD774161
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGA
EST: gi|208253805|gb|GE055559.1|GE055559
EST:     AGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: AGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|207792503|gb|GD763779.1|GD763779
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193625414|gb|FK577458.1|FK577458
EST:     TGAAAGGTTGCCTGATGAGATGAATGGCATGAAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TGAAAGGTTGCCTGATGAGATGAATGGCATG-AAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193433116|gb|FK395768.1|FK395768
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|208065324|gb|GD863058.1|GD863058
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|207692289|gb|GD674430.1|GD674430
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|208195307|gb|GD992202.1|GD992202
EST:     ATTAGGGATG-AAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: ATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193675425|gb|FK616485.1|FK616485
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|208191378|gb|GD987840.1|GD987840
EST:     ATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: ATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|208253915|gb|GE052505.1|GE052505
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193446950|gb|FK416211.1|FK416211
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|192300338|gb|FG991440.1|FG991440
EST:     TGAAAGGTTGCCTGATGAGATGAATGGGCATGAAAATTAGGGATGAAAGG                         GAAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATAT
genomic: TGAAAGGTTGCCTGATGAGATGAATGG-CATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAA-TGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATAT
EST: gi|208224963|gb|GE023436.1|GE023436
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGA
EST: gi|193419089|gb|FK381829.1|FK381829
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193441743|gb|FK409164.1|FK409164
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|207780088|gb|GD753017.1|GD753017
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|208150945|gb|GD944704.1|GD944704
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193332505|gb|FK301623.1|FK301623
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193397690|gb|FK365152.1|FK365152
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|207761253|gb|GD730908.1|GD730908
EST:     AGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: AGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|208111256|gb|GD912726.1|GD912726
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|207757619|gb|GD728225.1|GD728225
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193598643|gb|FK554095.1|FK554095
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|207727122|gb|GD701100.1|GD701100
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|208294613|gb|GE090008.1|GE090008
EST:     AGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: AGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|208111354|gb|GD913650.1|GD913650
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|19453652|gb|BM955062.1|BM955062
EST:     AGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: AGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193431139|gb|FK398579.1|FK398579
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193416812|gb|FK384198.1|FK384198
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193716979|gb|FK654677.1|FK654677
EST:     AAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: AAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|193496445|gb|FK460253.1|FK460253
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
EST: gi|207802488|gb|GD774376.1|GD774376
EST:     TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGG                         GAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA
genomic: TTGAAAGGTTGCCTGATGAGATGAATGGCATGAAAATTAGGGATGAAAGGgtaaagataa ... ctaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttcctggtaaatatgttgtgtacttatgttgtaacttgttaaactaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATAATTGTTACTACCATTGGTGGTAAAAATGGCCAGCCAAAGCAG
                                           aactaaa  putative branch site (score: 2)
                                     ttgttaaactaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagataaaatgtctattttatcttggtctgtttgcctttcacttcgcatcacgccatcaatcatttgagcaacttcctggtaaatatgttgtgtacttatgttgtaacttgttaaactaaatgcagGAAATGGAAGCAACTGTGGTAGATGGAAATGGGACTGAAACAGGACATATAATTGTTACTACCATTGGTGGTAAAAATGGCCAGCCAAAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG