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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatttattttttcttttgttccgtatcagattttattttatttattttgggttcagcagcatcagttttgattttattaatgaactatgcttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAGCTGGGCCGTGGGCCTTCCAAAGCGTGCT

Basic information

species Glycine max
transcript GLYMA07G32190.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G32190.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g00300.t01 (Vitis vinifera), 3'ss of exon 3
-tatttatttttt---cttttgttccgtatcagattttattttatttattttgggttcagcagcatcagttttgattttattaatgaactatgcttt-tatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAGCTGGGCCGTGGGCCTTCCAAAGCGTGCT
 ||  |||   |     | ||| |   ||| || || |           |  |||    | |          | | |||||   ||  || ||   | | ||||| || ||||||||||| ||||| || || || ||||  ||||||||||||||||||| ||| |||||||| ||||| |||
gtaagtatggctaaaattcttggtatatatgagcttctgacggtccatctgggggcatggaattgatgaaagttagtttat-ggtggtctgtggggtgtgtgcagTTTTGTATCGGTAATTCATTTGTTTGTTGGGGTGGTCTACTGTTTGGTGAGCTGGGGCGTCGGCCTTCCCAAGCGAGCT
















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|209720817|gb|BW677391.1|BW677391
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|120534376|gb|EH262509.1|EH262509
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|7041761|gb|AW471655.1|AW471655
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|213615350|gb|DB963544.1|DB963544
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|13480400|gb|BG509743.1|BG509743
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|20448694|gb|BQ252818.1|BQ252818
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|120534368|gb|EH262501.1|EH262501
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|7796788|gb|AW782182.1|AW782182
EST:     CATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: CATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|213589339|gb|DB961672.1|DB961672
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|20448800|gb|BQ252924.1|BQ252924
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|213587747|gb|DB955609.1|DB955609
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|209721814|gb|BW680013.1|BW680013
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|120531507|gb|EH259640.1|EH259640
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|20812093|gb|BQ296571.1|BQ296571
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|23063798|gb|BU578627.1|BU578627
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|15285164|gb|BI469055.1|BI469055
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|11412623|gb|BF424634.1|BF424634
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|26269548|gb|CA820611.1|CA820611
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|17519248|gb|BM188290.1|BM188290
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|6481941|gb|AW201212.1|AW201212
EST:     A-TTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|213587892|gb|DB959716.1|DB959716
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|10232571|gb|BE801459.1|BE801459
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTATGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|17153411|gb|BM143344.1|BM143344
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|15337762|gb|BI498418.1|BI498418
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|26058933|gb|CA801847.1|CA801847
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTCTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|16104872|gb|BI892612.1|BI892612
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|7691923|gb|AW760040.1|AW760040
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|213593376|gb|DB973569.1|DB973569
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|193705590|gb|FK643540.1|FK643540
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|23059611|gb|BU578385.1|BU578385
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|213602207|gb|DB958467.1|DB958467
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGT
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGT
EST: gi|24137046|gb|BU927556.1|BU927556
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|213590584|gb|DB973329.1|DB973329
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|15287351|gb|BI471242.1|BI471242
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
EST: gi|10847076|gb|BF069843.1|BF069843
EST:     ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATA                         CTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG
genomic: ATTTTCAACATCCTCAACAAGAAGATCTACAATTACTTCCCCTATCCATAgtaagttata ... ttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgggttcagcagcatcagttttgattttattaatgaactatgcttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAGCTGGGCCGTGGGCCTTCCAAAGCGTGCT
                             tattaat  putative branch site (score: 2)
                                          tgctttt  putative PPT
                    ttttgattttattaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatttattttttcttttgttccgtatcagattttattttatttattttgggttcagcagcatcagttttgattttattaatgaactatgcttttatgcagCTTCGTATCGGTAATCCATTTATTCGTGGGAGTGGCGTACTGTTTGGTGAGCTGGGCCGTGGGCCTTCCAAAGCGTGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - agcagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgaac