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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttttcatgagcctgaaatggttgaatttcattcctgttttttcatgtttgttgttggtttaatcttggaaagcattggtttttgaatggagcagTTGTAGCAACCAGCAAACTGGGGACTTGACAAAGTCTGATAGAGCAGTTGATGGGATATTTGGATTTGGGCAACAGGAAATGTCTGTCATTTCTCAACTT

Basic information

species Glycine max
transcript GLYMA17G05490.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G05490.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G22850.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagttttcatgagcctgaaatggttgaatttcattcctgttttttcatgtttgttgttggtttaatc--ttggaaagcattggtttttgaatggagc-agTTGTAGCAACCAGCAAACTGGGGACTTGACAAAGTCTGATAGAGCAGTTGATGGGATATTTGGATTTGGGCAACAGGAAATGTCTGTCATTTCTCAACTT
||||||||   | |||  |||    |||  |   | || |   | |      ||  | |||  ||  |   |||  | |      | |||   |||| | ||||| |||| |   || || || || ||    |||||||||||||| |||||||| || || || |||||||| || | |||||||||||||||||| |||
gtgagtttatttcagc--gaatcctttgtttcatagtcatcaatatgggccattactcttgactttgttggttgctatgtgggattgtttttctggaaccagTTGCAGCACCTCTCAGACGGGAGATTTAGTGAAGTCTGATAGAGCGGTTGATGGAATCTTCGGGTTTGGGCAGCAAGGAATGTCTGTCATTTCTCAGCTT

upper sequence: GLYMA17G05490.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0061g01030.t01 (Vitis vinifera), 3'ss of exon 3
gtgagttttcatgagcctg--aaatggttgaa---tttcattcctgttttttcatgtttgttgttggtttaatct---tggaaagcattggtttt--tga------atggagcagTTGTAGCAACCAGCAAACTGGGGACTTGACAAAGTCTGATAGAGCAGTTGATGGGATATTTGGATTTGGGCAACAGGAAATGTCTGTCATTTCTCAACTT
||||| |  |||||  |||  |||    |||    ||  ||  | ||| | | || || |   || | |     |   |||||  ||||| |||   |||      |||   ||| ||||||| |   || |||||||||||||||||||| ||  | |||||||||||||| ||||| ||||| |||||||| |||||||| || || ||| | 
gtgagctaccatgaatctgtcaaacctctgagagtttagatggcagttatgttattttggccttttgctcttcttgtttggaactcattgatttgggtgatgggttatgagacagGTGTAGCATCTCACAGACTGGGGACTTGACAAAGTCAGACCGGGCAGTTGATGGGATTTTTGGGTTTGGTCAACAGGATATGTCTGTTATCTCACAAATG
















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|8282905|gb|BE020466.1|BE020466
EST:     ATTTTTGAGGGATCCGTGACCACGAATTCTACTGCACCTGTAGTTTTTGG                         TTGTAGCAACCAGCAAACTGGGGACTTGACAAAGTCTGATAGAGCAGTTGA
genomic: ATTTTTGAGGGATCCGTGACCACGAATTCTACTGCACCTGTAGTTTTTGGgtgagttttc ... aatggagcagTTGTAGCAACCAGCAAACTGGGGACTTGACAAAGTCTGATAGAGCAGTTGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcatgtttgttgttggtttaatcttggaaagcattggtttttgaatggagcagTTGTAGCAACCAGCAAACTGGGGACTTGACAAAGTCTGATAGAGCAGTTGATGGGATATTTGGATTTGGGCAACAGGAAATGTCTGTCATTTCTCAACTT
                 gtttaat  putative branch site (score: 4)
                  tttaatctt  TA-rich tract