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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGTGAGGCAGTATAATCAACATGCTAATATGCAGACACAAACTTATGTGGATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaatgtgctttaaattctttagtcaagtttgtatagtgtggaccatgtgatttataaccccaaaactgtagtatttatgatttaaaacatcatg...

Basic information

species Glycine max
transcript GLYMA16G18370.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G18370.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv01s0150g00640.t01 (Vitis vinifera), 5'ss of exon 4
CAGTGAGGCAGTATAATCAACATGCTAATATGCAGACACAAACTTATGTGGATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaatgtgctttaaattctttagtcaagtttgtatagtgtggaccatgtgatttataaccccaaaactgtagtatttatgatttaaaacatcatg
|||||||   ||| ||| |||  |||  |     | || |   | | || |||||||| |||||  | |||||||| |||||||||||||||||||| |||||||| | |     || | ||  ||   ||| ||  |    |    | ||  | ||| ||||           | ||  |  |  || |          
CAGTGAGAAGGTACAATGAACTAGCTGGTTCTGGGCCAGAGCTTCAAGTTGATCCTTTACAGGCGGCACAGACTCCAGTTGATGAGATGATGAGACATGCgtaagtcagttgtggttgagttgatttcacaaattaat----tactaaacaaat-attgataattgt-------tggtgctcctctttcag---------
















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|57574914|gb|CX547889.1|CX547889
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|23735351|gb|BU765949.1|BU765949
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|193401857|gb|FK367076.1|FK367076
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATNTTTCTGCAACAACCCACTTC
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|7691264|gb|AW759458.1|AW759458
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|58019503|gb|CX706245.1|CX706245
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|192332725|gb|FK025382.1|FK025382
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATATTTTTGCAACAACCCACTTT
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|22928722|gb|BU545861.1|BU545861
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|31475362|gb|CD417390.1|CD417390
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|192304972|gb|FG997112.1|FG997112
EST:     GATCCTTTGCAGGCATTTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATTTGACAAAAATATTTTTGCAACAACCCACTTT
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|15812515|gb|BI784790.1|BI784790
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|31463626|gb|CD405654.1|CD405654
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|254314821|gb|GR829814.1|GR829814
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
EST: gi|26269004|gb|CA820067.1|CA820067
EST:     GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGC                         ATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC
genomic: GATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaat ... cattatgcagATATGTTGATCCTAATGATCCGACAAAAATATTTCTGCAACAACCCACTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGTGAGGCAGTATAATCAACATGCTAATATGCAGACACAAACTTATGTGGATCCTTTGCAGGCATCTCAGACTCCGGTTGATGAGATGATGAGACACGCgtaagtgaatgtgctttaaattctttagtcaagtttgtatagtgtggaccatgtgatttataaccccaaaactgtagtatttatgatttaaaacatcatg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG