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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCGGAAACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctcatcccagggttataaaattctcatctttccactgatgtttataaatttttcaaccctattaagatcctagggttatatctaaagtaattc...

Basic information

species Glycine max
transcript GLYMA06G14060.3
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G14060.3 (Glycine max), 5'ss of exon 9
lower sequence: Vv16s0098g01020.t01 (Vitis vinifera), 5'ss of exon 9
ATTCGGAAACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctcatcccagggttataaaattctcatctttccactgatgtttataaatttttcaaccctattaagatcctagggttatatctaaagtaattc
||||||||||| ||||||||||| ||||||||||||||||| || ||||||||||||||||  |  |         |  |   | ||| ||   |    |   |    ||| |  ||       ||  | ||      |||  ||      | || |
ATTCGGAAACTTGATGACACTGAATTTAGAAATCCTTGGGCAAGGGCTTATATTCGGgtaaccttcctctttttaatctttttaatcttattaatttggttgggaccttaattacttagggtaaatatatatgaatttgttcaattatttatgatac
















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|208308814|gb|GE104608.1|GE104608
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|208155050|gb|GD956201.1|GD956201
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAG
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAG
EST: gi|207736719|gb|GD710344.1|GD710344
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|5677805|gb|AI938935.1|AI938935
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|193572196|gb|FK532419.1|FK532419
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGTCACAG
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAG
EST: gi|14011762|gb|BG726684.1|BG726684
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|208124774|gb|GD924220.1|GD924220
EST:     CGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: CGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|207718222|gb|GD698814.1|GD698814
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATG
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATG
EST: gi|193694513|gb|FK627263.1|FK627263
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|193430706|gb|FK396424.1|FK396424
EST:     CCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: CCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|207825482|gb|GD800567.1|GD800567
EST:     ACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: ACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|193532913|gb|FK488519.1|FK488519
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|207703994|gb|GD684962.1|GD684962
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCG
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCG
EST: gi|31468970|gb|CD410998.1|CD410998
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|208250928|gb|GE050051.1|GE050051
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCA
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCA
EST: gi|31311171|gb|CD396374.1|CD396374
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTAATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|193620835|gb|FK568503.1|FK568503
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|208176930|gb|GD976001.1|GD976001
EST:     CTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: CTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|193529782|gb|FK485687.1|FK485687
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|10253540|gb|BE821306.1|BE821306
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|23726789|gb|BU761397.1|BU761397
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|208172876|gb|GD969395.1|GD969395
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|208167455|gb|GD965121.1|GD965121
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|193726924|gb|FK660250.1|FK660250
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|193551835|gb|FK506492.1|FK506492
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|207814380|gb|GD786903.1|GD786903
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|207749718|gb|GD718098.1|GD718098
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|208245893|gb|GE044779.1|GE044779
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
EST: gi|208165626|gb|GD963670.1|GD963670
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAAGAAGTAAGTCGTTCTAGGAAGCCACAGCAGA
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGA-GA-GTA-GTCGTTCTAGGA-GCCACAGCAGA
EST: gi|15199933|gb|BI424083.1|BI424083
EST:     AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGG                         GTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC
genomic: AACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctc ... gtttgtacagGTGAGGAAGTATGAGAGTAGTCGTTCTAGGAGCCACAGCAGAAGTCCCAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTCGGAAACTAGATGACACTGAGTTTAGAAATCCTTGGGCGAGAGCTTATATTCGGgtaatttctcatcccagggttataaaattctcatctttccactgatgtttataaatttttcaaccctattaagatcctagggttatatctaaagtaattc

- - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - -  GAGCTT