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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagtgcatgtctctttcttcttcctttgtttccttgtaccctcttttctttcacatcttacaacatgtgctatttgatagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTTGTCCAAACCAACAACAGAATAGCAATAGGGGCTGCAATCTCACCAAGAT

Basic information

species Glycine max
transcript GLYMA05G02460.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G02460.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G50150.1 (Arabidopsis thaliana), 3'ss of exon 5
------gtaagtagtgcatgtctctttcttcttcctttgtttccttgtaccctcttttctttca---catcttacaacatgtgctatttga-----tagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTTGTCCAAACCAACAACAGAATAGCAATAGGGGCTGCAATCTCACCAAGAT
        ||  | | | | | ||   ||| || |||   ||  || |    | |  |     |    |   ||    ||     |||||       |||| |||||||| |||||||| || |||||||| ||||| || || ||||| || ||||||||||| | ||| ||||| || || || || || || || |
gtaagatcaatcactacttttttcaaactttttgcttgaattatttatttaatatcatgagggaaaataatatattgaattgaaaatttggaaaagcagACTGATGCATACCAAGCAACTGGGTGCTACAATTTACTCTGCTCTGGATTCGTACAAACCAACAATAAAATTGCAATTGGTGCAGCGATTTCCCCGAGGT

upper sequence: GLYMA05G02460.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv17s0000g08870.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtagtgcatgtctctttcttcttcctttgtttccttgtaccctcttttctttc-------acatcttacaacatgtgctatttgatagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTTGTCCAAACCAACAACAGAATAGCAATAGGGGCTGCAATCTCACCAAGAT
|| |||  | || ||   |||  |||  |  |  | | |   ||  |     | |         |||      ||    |  || ||   |||| |||||||| || || || || |||||||||||||| || ||||| ||||||||||| |||||||  || || || |||||||||||||| ||||| |
gtgagt--ttcaagttcttttactctgtccatcatgcttaaaacttttgccacataacagaaaaacaaggactaattgctcttaatttgcagACCGATGCATACCAGGCCACTGGCTGCTACAACTTACTTTGCTCAGGTTTTGTCCAAACAAACAACAAGATCGCTATTGGGGCTGCAATCTCTCCAAGGT
















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|17963485|gb|BM270234.1|BM270234
EST:     GGAGACAACTATCCTAGGTTCTTCACTTATTGAACA                         ACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTT
genomic: GGAGACAACTATCCTAGGTTCTTCACTTATTGGACAgtaagtagtg ... tatttgatagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttccttgtaccctcttttctttcacatcttacaacatgtgctatttgatagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTTGTCCAAACCAACAACAGAATAGCAATAGGGGCTGCAATCTCACCAAGAT
                             atcttac  putative branch site (score: 3)
                                             tatttgata  TA-rich tract