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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcatgccagttagagtttttctcctggagtattttgacatatagggataacataacctttccagctcacttgctcctttcttctgatttcctcaaattttaacagGCAAATGGTGGATTTATTATGAGTGCAAGCCATAATCCTGGCGGACCTGAATATGATTGGGGTATTAAG

Basic information

species Glycine max
transcript GLYMA10G38590.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G38590.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os10g11140.2 (Oryza sativa), 3'ss of exon 6
gcatgccagttagagtttttctcctggagtattttgacatatagggataacataacctttccagctcacttgctcctttcttctgatttcctcaaattttaacagGCAAATGGTGGATTTATTATGAGTGCAAGCCATAATCCTGGCGGACCTGAATATGATTGGGGTATTAAG
                 | | |  |  |   ||||  |||  |  |    | | ||  |      | | || ||  ||  ||    ||| |   |||| |   |||| |||||||| || || |||||||||||||||||||| || || || ||  ||||||||||||| |||
----------------gtatgttttacacctttttt-cattcattgtgtgcttcactatcttttttaattttctaattcattgcagttttc---aattctgttagGCCAATGGTGGCTTCATCATGAGTGCAAGCCATAATCCAGGTGGGCCAGATAATGATTGGGGTATCAAG

upper sequence: GLYMA10G38590.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G025854_T02 (Zea mays), 3'ss of exon 6
gcatgccagttagagtttttctcctggagtattttgacatatagggataacataacctttccagctcacttgctcctttcttctg-atttcctcaaattttaacagGCAAATGGTGGATTTATTATGAGTGCAAGCCATAATCCTGGCGGACCTGAATATGATTGGGGTATTAAG
| ||||   || ||  || |         ||  || |  |||  |||| || || ||  |   |  || ||  |  ||  || || ||    || |  |||   |||| ||||| || ||||| |||||||||||||||||||| || ||||| ||  |||| ||||||||||||
gtatgct--ttggatcttct--------ataaattaat-tatgtggatgac-tatccacttt-gtccattttttttttatttttgtatggtttctatattttttagGCCAATGGCGGCTTTATCATGAGTGCAAGCCATAATCCAGGTGGACCAGACAATGACTGGGGTATTAAG

upper sequence: GLYMA10G38590.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 6
gcatgccagttagagtttttctcctggagtattttgacatatagggataacataacctttccagctcacttgctcctttcttctgatttcctcaaattttaacagGCAAATGGTGGATTTATTATGAGTGCAAGCCATAATCCTGGCGGACCTGAATATGATTGGGGTATTAAG
                           ||  |||| |  ||||    |   | ||  || | || ||  ||  | | ||  |||  ||       ||| | |||||||||||| ||||| |||||||||||||||||||||||||| |||||||||||||| |||||||| |||
------------------------gcaagctttttaatttatatct-tcttacaaagtt-caagatcgtttttttcattactcttgttgataattattctcacagGCAAATGGAGGATTCATTATGAGTGCAAGCCATAATCCTGGTGGACCTGAATATGACTGGGGTATCAAG

upper sequence: GLYMA10G38590.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv16s0022g02320.t01 (Vitis vinifera), 3'ss of exon 6
gcatgccagttagagtttttctcctggagtattttgacatatagggataacataacctttcca-gctcacttgctcctttcttctg--atttcctcaaattttaa--------cagGCAAATGGTGGATTTATTATGAGTGCAAGCCATAATCCTGGCGGACCTGAATATGATTGGGGTATTAAG
|||   ||  |     |  |       ||  || || ||| | || |    ||      ||||  ||||  |||    ||||| |   |     | |||    ||        ||||| ||||| || ||||| ||||||||||||||||||||||| || ||||||||||||||||| || |||
gcaaagcatattcctctccttgttcctagctttctg-catct-ggcaccttattttaaatccatactcatctgccttgttcttttataacacaattaaaaccaaataatgtttcagGCCAATGGAGGTTTTATAATGAGTGCAAGCCATAATCCTGGTGGGCCTGAATATGATTGGGGCATCAAG

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|120532649|gb|EH260782.1|EH260782
EST:     AAGGTATTTTGTCAACACCAGCCGTTTCTGCTGTTATAAGAAAGAGAAAG                         GCAAATGGTGGATTTATTATGAGTGCAAGCCATAATCCTGGCGGACCTGAA
genomic: AAGGTATTTTGTCAACACCAGCCGTTTCTGCTGTTATAAGAAAGAGAAAGgcatgccagt ... attttaacagGCAAATGGTGGATTTATTATGAGTGCAAGCCATAATCCTGGCGGACCTGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cataacctttccagctcacttgctcctttcttctgatttcctcaaattttaacagGCAAATGGTGGATTTATTATGAGTGCAAGCCATAATCCTGGCGGACCTGAATATGATTGGGGTATTAAG
                              ttctgat  putative branch site (score: 3)
                                         tcaaattttaa  TA-rich tract