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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGACCAGCTTGAAGAAAGAATGACACGCATCAAGGAGGATCCATCTCTGAAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagcaatttttctttttaattttttttttttttgctgtttttgacatttccatatttcccccataatattgatgtcaagtagcttcttaagtgattctttttatttcag

Basic information

species Glycine max
transcript GLYMA04G12950.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G12950.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv03s0038g04270.t01 (Vitis vinifera), 5'ss of exon 5
AAGACCAGCTTGAAGAAAGAATGACACGCATCAAGGAGGATCCATCTCTGAAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaa-gcaatttttctttttaattttttttttttttgctgtttttgac-atttccatatttcccccataatattga---tgtcaagtagcttcttaagtgat---tctttttatttcag-----------------------
| ||||||||||||||||||||| ||||||| || || ||||||||  |||| | |||||| || |||||||| ||||||||||| ||||| ||||||||||||  ||  | ||    ||     ||||| |  |  ||    |   ||| | ||    |||||     | | | || |    |||    |    | || ||| ||      |||| ||| |                        
AGGACCAGCTTGAAGAAAGAATGGCACGCATTAAAGAAGATCCATCATTGAAGCCTATTTTAGATGAGATAGAAACTGGTGGTCCAGCTGCCATGATGAGgtttctaacaccataaaactaaaatattttatcatcattataagcccttggctataaaaatattcatttcttgaaatgggatgtgttggatctaattttcagtcatgtactcttttgtttaaccttgttttaccctattggtttag
















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|9986080|gb|BE660188.1|BE660188
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GT-CTGGAATGATGANGAGGNTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
EST: gi|151411377|gb|EV281188.1|EV281188
EST:     AACATATTTTGGAGGAGATAGAGACTGGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AACATATTTTGGAGGAGATAGAGACTGG-TGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
EST: gi|151401177|gb|EV270991.1|EV270991
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGA-TGATGAAGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
EST: gi|192324548|gb|FK018704.1|FK018704
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
EST: gi|16996353|gb|BM085725.1|BM085725
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
EST: gi|11274419|gb|BF324772.1|BF324772
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTGTGCGG
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGG
EST: gi|151403875|gb|EV273685.1|EV273685
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGA
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGA
EST: gi|208174645|gb|GD967668.1|GD967668
EST:     AGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
EST: gi|7042039|gb|AW471933.1|AW471933
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTTTGCGGAATTTGGGACAAACCATGGG
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGG
EST: gi|213605925|gb|DB956639.1|DB956639
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGAT
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGAT
EST: gi|192325659|gb|FK019515.1|FK019515
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
EST: gi|254328123|gb|GR835088.1|GR835088
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
EST: gi|14125996|gb|BG790434.1|BG790434
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACCTGGAA-GATGAGGAG
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTAC-TGGAATGATGAGGAG
EST: gi|192323427|gb|FK016378.1|FK016378
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
EST: gi|208134410|gb|GD933099.1|GD933099
EST:     AGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
EST: gi|58018407|gb|CX705149.1|CX705149
EST:     AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
EST: gi|208198272|gb|GD996413.1|GD996413
EST:     AGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAG                         GTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT
genomic: AGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagc ... tttatttcagGTACTGGAATGATGAGGAGGTTTTGCGGAAGTTGGGACAAGCCATGGGTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGACCAGCTTGAAGAAAGAATGACACGCATCAAGGAGGATCCATCTCTGAAACATATTTTGGAGGAGATAGAGACTGGTGGTCCTGCTGCTATGATGAGgtttagaagcaatttttctttttaattttttttttttttgctgtttttgacatttccatatttcccccataatattgatgtcaagtagcttcttaagtgattctttttatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT