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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAAAATCGAAGGAAGGGTGATTCTGAGTTTGTGCTTGATTTTGAAGAGATTTATGTTATTGATTCCAAATCCAAGTCAATTACCAGAGCCAAAGTTTTGgtaaaaaattgtttgttaattctcagcctagttgcttttgaaatattctctgctggctgttgcaactacttgtcttccatagtcttttttctcagccttg...

Basic information

species Glycine max
transcript GLYMA06G12370.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G12370.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os11g01890.1 (Oryza sativa), 5'ss of exon 4
CAAAAATCGAAGGAAGGGTGATTCTGAGTTTGTGCTTGATTTTGAAGAGATTTATGTTATTGATTCCAAATCCAAGTCAATTACCAGAGCCAAAGTTTTGgtaaaaaattgtttgttaattctcagcctagttgcttttgaaatattctctgctggctgttgcaactacttgtcttccatagtcttttttctcagccttg------
||  ||| |  ||      ||  | || ||| | ||||||||||||||||| ||||||||||| || ||| | | |||||| || ||||| |||||| |||||| |    | || | ||||   |  || |  || ||   || ||       |  |  ||  |  || ||   || ||    || |||  |||    ||      
CAGGAATAGGCGGTGTAACGACCCAGATTTTTTCCTTGATTTTGAAGAGATATATGTTATTGACTCGAAAGCAAGGTCAATCACGAGAGCAAAAGTTGTGgtaaga---cgctt-taaatttaaattcttgaagcattcagaacataagtacataaccattata--tatttaggttgcaggagctctttcatcactaatgttagta

upper sequence: GLYMA06G12370.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os12g01950.1 (Oryza sativa), 5'ss of exon 4
CAAAAATCGAAGGAAGGGTGATTCTGAGTTTGTGCTTGATTTTGAAGAGATTTATGTTATTGATTCCAAATCCAAGTCAATTACCAGAGCCAAAGTTTTGgtaaaaaatt--gtttgttaattctcagcctagttgcttttgaaatattctctgctggctgttgcaactacttgtcttccatagtcttttttctcagccttg--
||  ||| |  ||      ||  | || ||| | ||||||||||||||||| ||||||||||| || ||| | | |||||| || ||||| |||||| |||||| |  ||     | | ||||||      | |       |||  ||| | |  |    ||||||    ||   ||| |||      ||||   ||       
CAGGAATAGGCGGTGTAACGACCCAGATTTTTTCCTTGATTTTGAAGAGATATATGTTATTGACTCAAAAGCAAGGTCAATCACGAGAGCAAAAGTTGTGgtaagacgtttgaaatttaaattcttgaagcattcagaacagaaccattatatatttag-gttgcaggagct---ctttcatcactaattttagtagaaaaaag

upper sequence: GLYMA06G12370.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G21600.2 (Arabidopsis thaliana), 5'ss of exon 4
CAAAAATCGAAGGAAGGGTGATTCTGAGTTTGTGCTTGATTTTGAAGAGATTTATGTTATTGATTCCAAATCCAAGTCAATTACCAGAGCCAAAGTTTTGgtaaaaaattgtttgttaattctcagcctagttg----cttttga-aatattctctgctggctgttgcaactacttgtcttccatagtcttttttc--tcagccttg
|   ||  ||||||     ||| | || |||||||| ||| |||||||||| |||||||||||||||||  | |||||||| |||||||||| |||| |||||  |   |  || |||  |  ||   || ||      | || | ||  |||||     |    ||     |    ||  || ||| |  |   |  |  |     
CCGGAACAGAAGGACAAACGATCCAGAATTTGTGCTAGATCTTGAAGAGATATATGTTATTGATTCCAAGACAAAGTCAATCACCAGAGCCAGAGTTCTGgtatga--ctaattcttatcttccaagttatttaagcattattaacaaagttctcattccgagtctgagcacaaacctcaaccgtagaccatagccaattgg-----

upper sequence: GLYMA06G12370.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv18s0001g01770.t01 (Vitis vinifera), 5'ss of exon 4
CAAAAATCGAAGGAAGGGTGATTCTGAGTTTGTGCTTGATTTTGAAGAGATTTATGTTATTGATTCCAAATCCAAGTCAATTACCAGAGCCAAAGTTTTGgtaaaaaa--ttgtttgttaattctcagcct----agttgcttttgaaatattctctgc-tggctgttgcaactacttgtcttccatagtcttttttctcagccttg
||  ||||| |||  || |||  | || |||||||| |||||||| ||||||||||| || ||||| ||| | || ||||| |||||||| |||||| |||| | | |  || |||| | ||  | ||  |    | | | |||  ||||| |||   | ||  |  ||  |  |      |   ||  |    |||||        
CAGGAATCGGAGGTTGGCTGACCCAGAATTTGTGCTCGATTTTGAGGAGATTTATGTAATCGATTCAAAAACAAAATCAATAACCAGAGCTAAAGTTGTGgtgagacactttttttggttatatttagtttccaaaatcgatttcaaaatactcttctcatgtttcgtgtgaaaaaaaaaatattatctttgaatttctt-------

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|10235664|gb|BE804552.1|BE804552
EST:     CAGAGCCAAAGTTTTG                         GTAACAGCTCCTGGAGGGAGAACAAGAGATAGAAGGAGTGACTTGCTTGTT
genomic: CAGAGCCAAAGTTTTGgtaaaaaatt ... tcttctgtagGTAACAGCTCCTGGAGGGAGAACAAGAGATAGAAGGAGTGACTTGCTTGTT
EST: gi|51336688|gb|CO980554.1|CO980554
EST:     CAGAGCCAAAGTTTTG                         GTAACAGCTCCTGGAGGGAGAACAAGAGATAGAAGGAGTGACTTGCTTGTT
genomic: CAGAGCCAAAGTTTTGgtaaaaaatt ... tcttctgtagGTAACAGCTCCTGGAGGGAGAACAAGAGATAGAAGGAGTGACTTGCTTGTT