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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttagattttctctttccttcccttcttcaaacaagaaagaagaaatgcactattgttaactaccttcctaacttgcagATTCTGAAGAAGAAAGGGGTTGTTATCCTCCCAGACATATTTGCAAACTCAGGAGGCGTTACAGTTAGCTACTTTGAGTGGGTCCAG

Basic information

species Glycine max
transcript GLYMA19G28770.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 7
-------gttagtttagattttctctttccttcccttcttcaaacaagaaagaagaaatgcactattgttaactaccttcctaacttgcagATTCTGAAGAAGAAAGGGGTTGTTATCCTCCCAGACATATTTGCAAACTCAGGAGGCGTTACAGTTAGCTACTTTGAGTGGGTCCAG
       |  | | | |||  | | |||     | ||||||     | |     | ||   |  | | |  | || ||  ||     ||||||  ||||||||||||| ||| | ||||||||||| ||||  |||||||||||||| || || || || ||||| |||||||| |||
gttattcgaaaatct-gatactttgtttttgctctttcttcttctcaaactcgcgtaacagaa-actctgtaatatctgtct---ccgcagATCTTGAAGAAGAAAGGTGTTATGATCCTCCCAGATATATACGCAAACTCAGGAGGAGTCACTGTAAGTTACTTCGAGTGGGTTCAG

upper sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ06180 (Selaginella moellendorffii), 3'ss of exon 7
gttagtttagattttctctttccttcccttcttcaaacaagaaagaagaaatgcactattgtt---aactaccttcctaacttgc-agATTCTGAAGAAGAAAGGGGTTGTTATCCTCCCAGACATATTTGCAAACTCAGGAGGCGTTACAGTTAGCTACTTTGAGTGGGTCCAG
                                    |  ||||| |  ||| ||  | | | |   | |||   |  |   |  | ||||| |   |||||||||  |  || |  | |||||||| || |||||||||||||| || ||||| |||||||| || ||||| |||
----------------------------------gtatgagaaaaataaaaagctttctggattgaatctatggttttttgtgactagATTTTTGCGAAGAAAGGCATCATTGTGTTGCCAGACATCTTGGCAAACTCAGGAGGTGTCACAGTGAGCTACTTCGAATGGGTACAG
















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|6566634|gb|AW234275.1|AW234275
EST:     AATTTATTGTGGAAGCAGCTAATCACCCAACTGACCCAGAGGCTGATGAG                         ATTCTGAAGAAAAAAGGGGTTGTTATCCTCCCA
genomic: AATTTATTGTGGAAGCAGCTAATCACCCAACTGACCCAGAGGCTGATGAGgttagtttag ... taacttgcagATTCTGAAGAAGAAAGGGGTTGTTATCCTCCCA
EST: gi|14990362|gb|BI316035.1|BI316035
EST:     AATTTATTGTGGAAGCAGCTAATCACCCAACTGACCCAGAGGCTGATGAG                         ATTCTGAAGAAGAAAGGGGTTGTTATCCTCCCAGACATATTTGCAAACTCA
genomic: AATTTATTGTGGAAGCAGCTAATCACCCAACTGACCCAGAGGCTGATGAGgttagtttag ... taacttgcagATTCTGAAGAAGAAAGGGGTTGTTATCCTCCCAGACATATTTGCAAACTCA
EST: gi|193422603|gb|FK387640.1|FK387640
EST:     AATTTATTGTGGAAGCAGCTAATCACCCAACTGACCCAGAGGCTGATGAG                         ATTCTGAAGAAGAAAGGGGTTGTTATCCTCCCAGACATATTTGCAAACTCA
genomic: AATTTATTGTGGAAGCAGCTAATCACCCAACTGACCCAGAGGCTGATGAGgttagtttag ... taacttgcagATTCTGAAGAAGAAAGGGGTTGTTATCCTCCCAGACATATTTGCAAACTCA
EST: gi|37997102|gb|CF808691.1|CF808691
EST:     AATTTATTGTGGAAGCAGCTAATCACCCAACTGACCCAGAGGCTGATGAG                         ATTCTGAAGAAGAAAGGGGTTGTTATCCTCCCAGACATATTTG
genomic: AATTTATTGTGGAAGCAGCTAATCACCCAACTGACCCAGAGGCTGATGAGgttagtttag ... taacttgcagATTCTGAAGAAGAAAGGGGTTGTTATCCTCCCAGACATATTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttcaaacaagaaagaagaaatgcactattgttaactaccttcctaacttgcagATTCTGAAGAAGAAAGGGGTTGTTATCCTCCCAGACATATTTGCAAACTCAGGAGGCGTTACAGTTAGCTACTTTGAGTGGGTCCAG
                                          tcctaac  putative branch site (score: 1)
                                    ctaccttcct  CT-rich tract
                           tattgttaa  TA-rich tract