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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatgtcctttcacttatgtgcctctttgtttttcttacaagtgacttatttaacggtttaattttgattttggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATATCACCAGATAGTGATCCGAGCAATTCCTTTCAAGACAAGGGGTTAACCAA

Basic information

species Glycine max
transcript GLYMA01G42950.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G42950.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g47220.1 (Oryza sativa), 3'ss of exon 2
----------------gtatatgtcctttc-----acttatgtgcctctttgt-ttttcttacaagtgacttatttaacggtttaattttgattttggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATATCACCAGATAGTGATCCGAGCAATTCCTTTCAAGACAAGGGGTTAACCAA
                || ||  || ||       || |   ||     | |   ||  |||||||     ||  |  || |  |||||     | |   | |||||||| ||||||||||| || |||||||| ||||||||||||||  | || |||||| | || ||| | |||||||| |||||||  |||   |||||  
tattactgtatgataagtctacatcattagtgaggacatgattgagcaatggcacttaattacaagca--ctaactcccgctgcaatttg---ctggttctgcagTGGATCTTCTGGGTTGGCCCCTTCATTGGCGCTGCCCTTGCTGCCATCTACCACCAGGTGGTCATCAGGGCAATTCCATTCAAGAGCAGGTCGTAACCTG

upper sequence: GLYMA01G42950.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0046g02420.t01 (Vitis vinifera), 3'ss of exon 3
-----------gtatatgtcctttcacttatgtgcctctttgtttttcttacaagtgacttatttaacggtttaattttgattttgg--cttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATATCACCAGATAGTGATCCGAGCAATTCCTTTCAAGACAAGGGGTTAACCAA
           |   |   ||  |||||| |    ||| |  ||| |||   ||    | | | ||  | ||| ||| |  | |||   | | ||||||||||||||||||||||| |||||||||||||| ||||||||  | || ||||||||||| ||| |||| || || |||||||| || |  | |  ||
gtaagctccatgatcagacccaatcacttct-catctcatcatttatctgtgaatctgcct-tgtattgatttcattcttttgttgttcccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTACCACCAGATAGTAATCAGAGCCATCCCATTCAAGACCAGAGCCTGAGAAA

upper sequence: GLYMA01G42950.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0046g02410.t01 (Vitis vinifera), 3'ss of exon 3
---------------------gtatatgtcctttcacttatgtgcctctttgtttttct-tacaagtgacttatttaacggtttaattttgattttggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATATCACCAGATAGTGATCCGAGCAATTCCTTTCAAGACAAGGGGTTAACCAA
                       | | | ||    |  |      ||| |  | | ||| |  |  ||||||   ||  | ||| ||| |  || |  |   ||||||||||||||||||||||| |||||||||||| | || ||| |  | || ||||||||||| ||| |||| || || |||||||| || |  | |  ||
gtaagtgaaaacattgctctataagaagacccaatagcttctcatctcgtcatctatctgtgaatctgacttg--tattgatttcattcttgttgttcccatcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTACTCTGGCTACCTTGTACCACCAGATAGTCATCAGAGCTATCCCATTCAAGACCAGAGCCTGAGAAA

upper sequence: GLYMA01G42950.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0025g03390.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------gtatatgtcctttcacttatgtgcctctttgtttttcttacaagtgacttatttaacggtttaattttgattttg--------gcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATATCACCAGATAGTGATCCGAGCAATTCCTTTCAAGACAAGGGGTTAACCAA
                           | |   |     | || ||   |  ||  |  ||      |||   | | || | | | | ||| ||| |||         |||| |||||||| |||||||| ||||| |||||||||||||| ||||||||  | || || |||||||| ||| |||| ||||| |||||||  |||| || |    
gtaggtgttttgatgagaaaaaaaaaaaaaaacctaaggaattttgcatcctttgatggttaaattgagt--ttcagttcaagttcttattgtgactttttttctcttgctttcagTGGATCTTCTGGGTGGGACCGTTCATTGGAGCTGCTCTTGCTGCCATGTACCAGCAGATAGTCATCAGAGCCATTCCATTCAAGAGCAGGGCTTGAGATT

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|37996387|gb|CF807976.1|CF807976
EST:     GAGACCATGCTTGGGATGACCAT                         TGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
genomic: GAGACCATGCTTGGGATGACCATgtatatgtcc ... tggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
EST: gi|192305304|gb|FG997556.1|FG997556
EST:     GTCTTGGTGCTGCTATAATATACAACCGAGACCATGCTTGGGATGACCAT                         TGGATTTTTTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
genomic: GTCTTGGTGCTGCTATAATATACAACCGAGACCATGCTTGGGATGACCATgtatatgtcc ... tggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
EST: gi|193601187|gb|FK553048.1|FK553048
EST:     ATACAACCGAGACCATGCTTGGGATGACCAT                         TGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
genomic: ATACAACCGAGACCATGCTTGGGATGACCATgtatatgtcc ... tggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
EST: gi|193385708|gb|FK350286.1|FK350286
EST:     GCTGCTATAATATACAACCGAGACCATGCTTGGGATGACCAT                         TGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
genomic: GCTGCTATAATATACAACCGAGACCATGCTTGGGATGACCATgtatatgtcc ... tggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
EST: gi|193418094|gb|FK381730.1|FK381730
EST:     GTCTTGGTGCTGCTATAATATACAACCGAGACCATGCTTGGGATGACCAT                         TGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
genomic: GTCTTGGTGCTGCTATAATATACAACCGAGACCATGCTTGGGATGACCATgtatatgtcc ... tggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
EST: gi|192295284|gb|FG985938.1|FG985938
EST:     GTCTTGGTGCTGCTATAATATACAACCGAGACCATGCTTGGGATGACCAT                         TGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
genomic: GTCTTGGTGCTGCTATAATATACAACCGAGACCATGCTTGGGATGACCATgtatatgtcc ... tggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
EST: gi|31474331|gb|CD416359.1|CD416359
EST:     GTCTTGGTGCTGCTATAATATACAACCGAGACCATGCTTGGGATGACCAT                         TGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT
genomic: GTCTTGGTGCTGCTATAATATACAACCGAGACCATGCTTGGGATGACCATgtatatgtcc ... tggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttttcttacaagtgacttatttaacggtttaattttgattttggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATATCACCAGATAGTGATCCGAGCAATTCCTTTCAAGACAAGGGGTTAACCAA
                               tttaattttgatttt  TA-rich tract