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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catggttatatagcttcatagtcatgctaatattgaggttcttcctgcaatttatcatgacaagttctgaacatctacttgatgatttgtgacattttagATTGGATATGAATTTGACTTCACGAGGGAGGCTAATGCGATGGAAAGGATTAGAAAGTTCTTGTATGAAAGTAACAAAAAGACTCCTGTTTTGGTGCCGC

Basic information

species Glycine max
transcript GLYMA05G02990.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G02990.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G50330.2 (Arabidopsis thaliana), 3'ss of exon 4
catggttatatagcttcatagtcatgctaatattgaggttcttcctgcaatttatcatga--caagttctgaacatctacttgatgatttgtgacattttagATTGGATATGAATTTGACTTCACGAGGGAGGCTAATGCGATGGAAAGGATTAGAAAGTTCTTGTATGAAAGTAACAAAAAGACTCCTGTTTTGGTGCCGC
                  || | |   | || |||   | |||  ||  | ||||  |    |||||     | | |||   | |   || |    ||  ||||||| ||||||||||||||||  |||||||| ||||| |||||||| ||| ||   ||  | ||||| |  ||||||||| ||||||||||||| ||  
-----------------gtactta-attgatcttg--ttcctttgtgagacttatttttctccaagtcactgaaaactatgcgttttctttt----ttcaagATTGGTTATGAATTTGACTTCAAAAGGGAGGCCAATGCAATGGAAAGAATTCGATGTTTTCTTTATGAGAACAACAAAAAGTCTCCTGTTTTGGTACCAA

upper sequence: GLYMA05G02990.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv17s0000g10260.t01 (Vitis vinifera), 3'ss of exon 5
-----catggttatatagcttcatagtcatgctaatattgaggttcttcctgcaatttatcatgacaagttctgaacatctacttgatgatttgtga--cattttagATTGGATATGAATTTGACTTCACGAGGGAGGCTAATGCGATGGAAAGGATTAGAAAGTTCTTGTATGAAAGTAACAAAAAGACTCCTGTTTTGGTGCCGC
     | || |||  ||  | | |||   | ||   ||     || ||| || |  || |||| | |  |  |||||||    ||  |   || |    ||||  ||||||||||||||||||||||||  ||||||||| |||| |||||||| || | |   || |||||||| | ||||||||||  ||||||||||||||| |
attttcttgattaagta--tacgtagattttct---atctgcattattcttg-atcttttcat-atatttcttgaacataattttattttctttttcttcattcaagATTGGATATGAATTTGACTTCATTAGGGAGGCTGATGCAATGGAAAGAATAAAACGTTTTTTGTATGAGAATAACAAAAAGCGTCCTGTTTTGGTGCCAC
















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|26045634|gb|CA783161.1|CA783161
EST:     CAGATATCAAATTTGATCTATATTCAGTGACTAAGGAAATGGAAAAACAG                         ATTGGATATGAA
genomic: CAGATATCAAATTTGATCTATATTCAGTGACTAAGGAAATGGAAAAACAGgtggacttaa ... gacattttagATTGGATATGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcaatttatcatgacaagttctgaacatctacttgatgatttgtgacattttagATTGGATATGAATTTGACTTCACGAGGGAGGCTAATGCGATGGAAAGGATTAGAAAGTTCTTGTATGAAAGTAACAAAAAGACTCCTGTTTTGGTGCCGC
                               acttgat  putative branch site (score: 5)
     tttatcat  TA-rich tract