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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAGGTCTTCGGGAACTACTTGTAGGGAAGGATGATGAGCTTCTCCAGACTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatttttattgttaataaacttgatggacataacacctcccccattttttaggtcatgtttggatattataagagaagaaaataagaaagtaaa...

Basic information

species Glycine max
transcript GLYMA07G15960.1
intron # 6
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 6
lower sequence: Vv08s0007g00530.t01 (Vitis vinifera), 5'ss of exon 6
TGGAGGTCTTCGGGAACTACTTGTAGGGAAGGATGATGAGCTTCTCCAGACTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatttttattgttaataaac--ttgatggacataacacctcccccatttttta---ggtcatgtttggatattataagagaagaaaataagaaagtaaa-------------------------------------------------------
 || ||  | |||||| ||||||| || |||||||||||||||||  |||| ||||| || ||||| | |||   ||||||||||||||| ||||||||||||     ||   |  | |  |  |   |   |   |||     ||    || || ||    | || | | ||  ||  || | | |   | | |  |   || |                                                       
AGGTGGCATCCGGGAATTACTTGTTGGCAAGGATGATGAGCTTCTTAAGACAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagtttacaagggcttgtgcatgttcattatgcattttttctgtttcaattcttgcttgttcttctctgcttaccattatatattcatacataacgttagatttcttggttgtgccccatcttgactgagttgcaaattacatgttctctaaccag
















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|8285026|gb|BE022585.1|BE022585
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAATGCATTTGACTTGGCATCAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAA
EST: gi|192323796|gb|FK015607.1|FK015607
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAAGCATTTGACTTGGCATC
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATC
EST: gi|208333218|gb|GE127453.1|GE127453
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|208045912|gb|GD845150.1|GD845150
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|6095017|gb|AW119684.1|AW119684
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|209725255|gb|BW672730.1|BW672730
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|26269011|gb|CA820074.1|CA820074
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|209722162|gb|BW672387.1|BW672387
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|209711638|gb|BW671349.1|BW671349
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|208117437|gb|GD919135.1|GD919135
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|208180565|gb|GD973766.1|GD973766
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|193729534|gb|FK666048.1|FK666048
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|193621527|gb|FK572347.1|FK572347
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|213594950|gb|DB977250.1|DB977250
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|22932949|gb|BU550088.1|BU550088
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|22522578|gb|BU081389.1|BU081389
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|209703531|gb|BW678273.1|BW678273
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|192305319|gb|FG994015.1|FG994015
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|209710152|gb|BW658901.1|BW658901
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|31475468|gb|CD417496.1|CD417496
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|209713453|gb|BW679255.1|BW679255
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGGAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|13563514|gb|BG551734.1|BG551734
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|18719000|gb|BM523126.1|BM523126
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|193385161|gb|FK352315.1|FK352315
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGGGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|208334242|gb|GE132495.1|GE132495
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|208144896|gb|GD941233.1|GD941233
EST:     CCATAAGTAGATTCTTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CCATAAGTAGA-TC-TGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|58016121|gb|CX702863.1|CX702863
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|192333007|gb|FK024656.1|FK024656
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|193349571|gb|FK316127.1|FK316127
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|214006672|gb|DB987554.1|DB987554
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|209703530|gb|BW678272.1|BW678272
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|209706219|gb|BW680910.1|BW680910
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
EST: gi|5175554|gb|AI759887.1|AI759887
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA
genomic: CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTTTGAGGAGGCTAAATTCAAGGCATTTGACTTGGCATCAAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGAGGTCTTCGGGAACTACTTGTAGGGAAGGATGATGAGCTTCTCCAGACTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatttttattgttaataaacttgatggacataacacctcccccattttttaggtcatgtttggatattataagagaagaaaataagaaagtaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaataa