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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCCAGCAGCATGAAGATCAAGGTTGTAGCACCACCGGAGAGAAAATACAGTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgtttgttctcttcctttattctttttcctgcttcttggaatgttatgttgttgtgagatagtacattcttctatgataataatgacacacttttgttttgagtgcag

Basic information

species Glycine max
transcript GLYMA18G52780.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G52780.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0019g01240.t01 (Vitis vinifera), 5'ss of exon 3
ACCCAGCAGCATGAAGATCAAGGTTGTAGCACCACCGGAGAGAAAATACAGTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgtttgttctcttcctttattctttttcctgcttcttggaatgttatgttgttgtgagatag-tacattcttctatgataataatgacacacttttgttttgagtgcag
 || |||||||||||||||||||| || |||||||| ||||| ||||||||||||||||| || || || ||||||||||| || ||||| |||||||||||||| |   || ||  |    |||   ||       ||||| | | |    ||||   |  |    |  | | ||||   | ||   || ||||    |||||||||
CCCAAGCAGCATGAAGATCAAGGTAGTGGCACCACCTGAGAGGAAATACAGTGTCTGGATTGGAGGCTCCATCTTGGCATCCCTCAGCACTTTCCAGCAGgtttgcttcttttctgcaaagatttatatgt------gaatgat-tctaaccgtgaatcatctttgatagtttctgattggagtg---cattttt----tgagtgcag

upper sequence: GLYMA18G52780.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S337_26V6.1 (Physcomitrella patens), 5'ss of exon 4
ACCCAGCAGCATGAAGATCAAGGTTGTAGCACCACCGGAGAGAAAATACAGTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgtttgttctcttcctttattctttttcctgcttcttggaatgttatgttgttgtgagatagtacattcttctatgataataatgacacacttttgttttgagtgcag
|||    ||||||||||| ||||| || || || || ||||| || |||||||| ||||| || || ||||| ||||||||||| || |||||||| ||||| | |||| ||   |||   ||  |   | | | || |   |    || || |   |   |      || |||    ||  ||||    |   |||||   |||||
ACCATCGAGCATGAAGATAAAGGTGGTGGCGCCGCCAGAGAGGAAGTACAGTGTATGGATAGGAGGGTCTATTTTGGCATCTCTCAGTACCTTCCAACAGgtat-ttcttttatattacagttgctta-gttgcatgcataatctgatttttatattacttttttgcattttatctgcattttgacgtgttggggtttt---tgcag

upper sequence: GLYMA18G52780.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 5'ss of exon 5
ACCCAGCAGCATGAAGATCAAGGTTGTAGCACCACCGGAGAGAAAATACAGTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgt-------ttgttctcttcctttattctttttcctgcttcttggaatgtt---atgttgttgtgagatagtacattcttctatgataataatgacacacttttgtt-ttgagtgcag------------------
|||    ||||||||||| ||||| || || || || ||||| || |||||||| ||||| || || ||||| ||||||||||| || |||||||| |||||       |||     |  ||   ||   |||| || || ||   ||||    ||||  ||||    |   |   ||   | ||   |   ||  |   || ||   || | | |                    
ACCATCGAGCATGAAGATAAAGGTGGTGGCGCCGCCAGAGAGGAAGTACAGTGTATGGATAGGAGGGTCTATTTTGGCATCTCTCAGTACCTTCCAACAGgtaatgtatttgactcgtgtctgagttgcatttcgtgtttttttttatgtcttcatgtctttgtttcttcaaatgctcgcgtttgtcgaggctgtaatctttctggaatttaatccgtttacttgttgtggtgcag

upper sequence: GLYMA18G52780.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S372_48V6.1 (Physcomitrella patens), 5'ss of exon 3
ACCCAGCAGCATGAAGATCAAGGTTGTAGCACCACCGGAGAGAAAATACAGTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgtttgttctcttcctttattctttttcctgctt--cttgg--aatgttatg-ttgttgtgagatagtacattcttctatgataataatgacacacttttgtt--ttgagtgcag---------------------------
 ||    ||||||||||||||||| || || || |||||||| || ||||| || |||||||| || || ||||||||||| || |||||||||||||||||    |   ||    |  | ||||    | |   | |||  ||| ||    || || | || ||| |  |     | |||  ||  |   | |  || |||  ||  |||                              
GCCGTCAAGCATGAAGATCAAGGTGGTGGCGCCTCCGGAGAGGAAGTACAGCGTGTGGATCGGAGGCTCCATCTTGGCATCCCTCAGCACCTTCCAGCAGgtaaactgagtttgcatgatattttctacgttggacgtggtaaatattgaacttcttttcagttagca-gtcggaatttgagtatgtttcgagaggttggttaattcggtgtttgcacatattgttctttctgtggtgcag

upper sequence: GLYMA18G52780.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ17401 (Selaginella moellendorffii), 5'ss of exon 3
ACCCAGCAGCATGAAGATCAAGGTTGTAGCACCACCGGAGAGAAAATACAGTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgt-ttgttctcttcctttattctttttcctgcttcttggaatgttatgttgttgtgagatagtacattcttctatgataataatgacacacttttgttttgagtgcag
 ||||||||||||||||||||||| || || || |||||||| || ||||| |||||||| || ||||||||| |||| || || ||||||||||| |||||         ||| |||  || |||| ||   | |  |  |  | | |  || |    |    ||                                          
TCCCAGCAGCATGAAGATCAAGGTGGTTGCTCCTCCGGAGAGGAAGTACAGCGTCTGGATTGGAGGTTCTATCCTGGCTTCGCTCAGCACCTTCCAACAGgtaccacaacattcttttgctcgtttttct---tatcagccttgtttttctttttcgtttctcgcag-----------------------------------------

upper sequence: GLYMA18G52780.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ35077 (Selaginella moellendorffii), 5'ss of exon 3
ACCCAGCAGCATGAAGATCAAGGTTGTAGCACCACCGGAGAGAAAATACAGTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgt-ttgttctcttcctttattctttttcctgctt--cttggaatgttatgttgttgtgagatagtacattcttctatgataataatgacacacttttgttttgagtgcag
 ||||||||||||||||||||||| || || || |||||||| || ||||| ||||||||||| ||||||||| |||| || || ||||||||||| |||||         ||| |||  || |||| ||  |   | | |  | |  | || || |     ||                                              
TCCCAGCAGCATGAAGATCAAGGTGGTTGCTCCTCCGGAGAGGAAGTACAGCGTCTGGATCGGAGGTTCTATCCTGGCTTCGCTCAGCACCTTCCAACAGgtaccacaacattcttttgctcgtttttcttatcagccttgtttttctttttcttttttcgcag----------------------------------------------

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|105633490|gb|DW246853.1|DW246853
EST:     GTCTGGATCGGTGGGTTCTATCTTGGCATCTCTTTAACACCTTCCAGCAG                         ATGTGGATTGCAAAGGCAGAAATATGACGAGTC
genomic: GTCTGGATCGGTGG-TTCTATCTTGGCATCTCTT-AGCACCTTCCAGCAGgtttgttctc ... ttgagtgcagATGTGGATTGCAAAGGCAGAA-TATGACGAGTC
EST: gi|17023789|gb|BM094823.1|BM094823
EST:     GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAG                         ATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC
genomic: GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgtttgttctc ... ttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC
EST: gi|21601462|gb|BQ611793.1|BQ611793
EST:     GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAG                         ATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC
genomic: GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgtttgttctc ... ttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC
EST: gi|10843337|gb|BF066640.1|BF066640
EST:     GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAG                         ATGTGGATTGCANAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC
genomic: GTGTCTGGATCGGTGGTTCTATCTTGGCATCTCTTAGCACCTTCCAGCAGgtttgttctc ... ttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCAC