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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaattggtacaagttatttacttgctaggttcacagcaacagtggttgttgagtttttttttatcccaatcatgttcaactctgaatctcttcttgcagGTTATGTGTCCAACATGTCTCTGCACTGGAATGGCCATGGCAAGCGAACATGATCCACGAATTGATCCTTTTGATTAGAG

Basic information

species Glycine max
transcript GLYMA09G36770.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G36770.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g43500.1 (Oryza sativa), 3'ss of exon 7
-taaattgg-----tacaagttatttacttgc--taggttcacagcaacagtggttgttgagttt--ttttttatccc--aatcatgttcaactctgaatct-------cttcttgcagGTTATGTGTCCAACATGTCTCTGCACTGGAATGGCCATGGCAAGCGAACATGATCCACGAATTGATCCTTTTGATTAGAG--------------------
 |||||  |     | ||   |  || |   |   |   |||    || | |    |   | ||    ||  |||     | | |    || | |||| |          |  |||||||| ||||||||||||||||||||||| || ||||| |||||||| || || || || ||||||||||| |||||||| |                     
gtaaatcagccttttgcacaatgattcccaacaacaatgtcattcaaataatatacgcatatttccacttgctattttggattgaaaaacagccctgatttcaaacaaaatgtttgcagGTGATGTGTCCAACATGTCTCTGCACGGGGATGGCAATGGCAAGTGAGCACGACCCTCGAATTGATCCGTTTGATTAAAATGCACGTCATAGTTCAGAAA

upper sequence: GLYMA09G36770.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv16s0013g00350.t01 (Vitis vinifera), 3'ss of exon 6
------taaattggtacaagttatttacttgctaggttcacagcaacagtggttgttgagtttttttttatcccaatcatgttcaactctgaatctcttcttgcagGTTATGTGTCCAACATGTCTCTGCACTGGAATGGCCATGGCAAGCGAACATGATCCACGAATTGATCCTTTTGATTAGAG--------------------
           | ||    ||    |||   | | |||||     || |    |   ||  |||    | |   ||  | |   || | |  |||| || |||||||| ||||| || ||||| ||||| ||||| ||||  ||||| ||||| |||||||||||||| ||||| ||||| |||||                    
tcacctccttctagtgggggtatgatacaacccaagttcaac---actgaaacttcagaaatttccagtttgtgaactagggataaattt--atctatt-ttgcagGTCATGTGCCCCACATGCCTCTGTACTGGGATGGAAATGGCGAGCGAGCATGATCCACGAATAGATCCCTTTGACTAGAGTTGCATCATTTCCTTCATAC

upper sequence: GLYMA09G36770.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S237_60V6.2 (Physcomitrella patens), 3'ss of exon 8
-taaattggtacaagttatttacttgctaggttcacagcaaca-gtggttgttgagtttttttttatcccaatcatgttcaactctgaatc---tcttcttgcagGTTATGTGTCCAACATGTCTCTGCACTGGAATGGCCATGGCAAGCGAACATGATCCACGAATTGATCCTTTTGATTAGAG
 | |   ||| |||    |    |  | | |      |||| |  | |   | |  | ||| |||     | || |     ||   ||||        ||||||||| ||||||||||||||||||||||| || |||||  |||| || ||||| ||||| || ||||| |||||  |      
gttacacggttcaaagcttacgttatcaaag-----ggcaatatatagccttagtttctttcttttatgtagtcgttgctgaccgggaattgaacacacttgcagGTGATGTGTCCAACATGTCTCTGCACAGGCATGGCACTGGCTAGTGAACACGATCCTCGCATTGACCCTTTCCA------

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|31310538|gb|CD395741.1|CD395741
EST:     TTTCACCACCAAAAACTGAGAGATGTTCAAATTGCTCTGGATCTGGCAAG                         GTTATGTGTCCAACATGTCTCTGCACTGGAATGGCCATGGCAAGCGAACAT
genomic: TTTCACCACCAAAAACTGAGAGATGTTCAAATTGCTCTGGATCTGGCAAGgttggtcatt ... cttcttgcagGTTATGTGTCCAACATGTCTCTGCACTGGAATGGCCATGGCAAGCGAACAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgttgagtttttttttatcccaatcatgttcaactctgaatctcttcttgcagGTTATGTGTCCAACATGTCTCTGCACTGGAATGGCCATGGCAAGCGAACATGATCCACGAATTGATCCTTTTGATTAGAG
                                          tctcttcttgc  CT-rich tract
     tgagtttttttttat  TA-rich tract