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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacataacaaacaatctaatgcttccatcactaacctaattaattatgaatatttgcttgaatcatttaatcaattgtctcgagttctattatttgccttgcagGACCTTGGAGATGGTTTGATGAATCTATGTTGGACTGCTGTGAGCCTCTAGAAACAGTCAAGGCTAGAGGCATCACGTTCGGGAAGCTTGTGTGTTTGGC

Basic information

species Glycine max
transcript GLYMA03G32200.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G32200.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G44070.1 (Arabidopsis thaliana), 3'ss of exon 2
gtacataacaaacaatctaatgcttccatcactaacctaattaattatgaatat-ttgcttgaatcatttaatcaattgtctcgagttctattatttgccttgcagGACCTTGGAGATGGTTTGATGAATCTATGTTGGACTGCTGTGAGCCTCTAGAAACAGTCAAGGCTAGAGGCATCACGTTCGGGAAGCTTGTGTGTTTGGC
                     |  | ||  | | |   |   |||||||   |   |   | ||| ||    |   || |    |||| |  | | |  |    ||| |||||||| |||||||||||||| |||||||| ||||| || ||||| |||  ||| ||||  | ||||||  | || || ||  |||| ||||||||
---------------------gtatgcaagattga---agcaaattatgtccacactaaataaatgat--ggttttttataaaaagttttcctctct-tccaatagGGCCTTGGAGGTGGTTTGATGAATCAATGTTGGATTGCTGCGAACCTCTGGAAGTAGTGAAGGAAAAAGGCATTTCATTTGGAAAAGTTGTCTGTTTGGC

upper sequence: GLYMA03G32200.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0005g03760.t01 (Vitis vinifera), 3'ss of exon 1
gtacataacaaacaatctaatgcttccatcac-taacctaattaattatgaatatttgcttgaatcatttaatcaattgtctcgagtt----ctattatttgccttgcagGACCTTGGAGATGGTTTGATGAATCTATGTTGGACTGCTGTGAGCCTCTAGAAACAGTCAAGGCTAGAGGCATCACGTTCGGGAAGCTTGTGTGTTTGGC
           ||  |   |||||    |  | |  |||  || || ||     ||||||| |   ||  ||  |  |         |    | |  || |  ||| |||||||||||||||||||||||||| ||||| | ||||||||||| ||| | |||| ||| || |||   || ||| | || ||||||||||| ||||||||
----------tactttgggatgctctgttggcgttgccttttttataatactcttttgctttacctatccaaaaacataaaaaagactgttgccacaatgtttcttacagGACCTTGGAGATGGTTTGATGAAACTATGCTCGACTGCTGTGAACCTTTGGAAAAAGTTAAAGCTGATGGTATCTCATTTGGGAAGCTTGTCTGTTTGGC
















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|26047568|gb|CA784307.1|CA784307
EST:     GTCCATGGTCCTCAATGCTCTTGCCATTGATCCTGGCAGAAAATGGAAAG                         GACCTTGGAGATGGTTTGATGAATCTATGTTGGACTGCTGTGAGCCTCTAG
genomic: GTCCATGGTCCTCAATGCTCTTGCCATTGATCCTGGCAGAAAATGGAAAGgtacataaca ... tgccttgcagGACCTTGGAGATGGTTTGATGAATCTATGTTGGACTGCTGTGAGCCTCTAG
EST: gi|209714258|gb|BW677011.1|BW677011
EST:     GTCCATGGTCCTCAATGCTCTTGCCATTGATCCTGGCAGAAAATGGAAAG                         GACCTTGGAGATGGTTTGATGAATCTATGTTGGACTGCTGCGAGCCTCTAG
genomic: GTCCATGGTCCTCAATGCTCTTGCCATTGATCCTGGCAGAAAATGGAAAGgtacataaca ... tgccttgcagGACCTTGGAGATGGTTTGATGAATCTATGTTGGACTGCTGTGAGCCTCTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatttgcttgaatcatttaatcaattgtctcgagttctattatttgccttgcagGACCTTGGAGATGGTTTGATGAATCTATGTTGGACTGCTGTGAGCCTCTAGAAACAGTCAAGGCTAGAGGCATCACGTTCGGGAAGCTTGTGTGTTTGGC
               atttaat  putative branch site (score: 4)
                                           tttgcctt  putative PPT
           aatcatttaatcaatt  TA-rich tract