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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTGCTGTGAGTAGGAACATGCTGGAGAGTTTGGCGGTTCCCACTTTCAGAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttgaatgtgcaatgcattgactcctttgagggtgtttgtttttagttgccgtactagttgactaaatcacatggataatgttggttttctttt...

Basic information

species Glycine max
transcript GLYMA10G35960.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G35960.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G34430.1 (Arabidopsis thaliana), 5'ss of exon 1
GAGTGCTGTGAGTAGGAACATGCTGGAGAGTTTGGCGGTTCCCACTTTCAGAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttgaatgtgcaatgcatt-gactcctttgagggtgtttgtttttagttgccgtactagttgactaaatcacatggataatgttggttttctttt-
| | |||||||||||||| ||| |||||||| | |  ||||| ||||| ||||| |||||||| || |  |||||||| || |||||  | ||||||||||||||  |    | || ||| | || |  |  | |||  | ||    |     || |  |  | ||      | |  | ||   ||  || |   | |    
GGGGGCTGTGAGTAGGAATATGGTGGAGAGTCTTGGTGTTCCTACTTTTAGAGTCGGTTACACGATTAGTACGGATGCTCTTGATGCTCTCTACAAGAAGgtgagtgt--gttttgaaatccgtttggttggtatgatagagtagactggagattccattgattgtgataatagttgcttgatgaagttttgaactttggga
















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|193510752|gb|FK466690.1|FK466690
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
EST: gi|208231214|gb|GE033473.1|GE033473
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
EST: gi|13790727|gb|BG653318.1|BG653318
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
EST: gi|208303495|gb|GE100904.1|GE100904
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
EST: gi|193310749|gb|FK277543.1|FK277543
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
EST: gi|193325967|gb|FK288138.1|FK288138
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
EST: gi|208143713|gb|GD943402.1|GD943402
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAG
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAG
EST: gi|193515200|gb|FK473756.1|FK473756
EST:     AGTTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
genomic: AG-TTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
EST: gi|208337961|gb|GE134349.1|GE134349
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
EST: gi|193645104|gb|FK587846.1|FK587846
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
EST: gi|193569049|gb|FK525736.1|FK525736
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
EST: gi|193527959|gb|FK483461.1|FK483461
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTGCTAAGGCTACTGCA
EST: gi|193600404|gb|FK554225.1|FK554225
EST:     GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAG                         ATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTG
genomic: GAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttg ... aaaatttcagATCAAGTCAAAGGGAGTCACAATGACAGCATTGCTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTGCTGTGAGTAGGAACATGCTGGAGAGTTTGGCGGTTCCCACTTTCAGAGTTGGTTACACCATCACCACGGATGCACTCGATGCCTTGTACAAGAAGgtgagctttgaatgtgcaatgcattgactcctttgagggtgtttgtttttagttgccgtactagttgactaaatcacatggataatgttggttttctttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG