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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaacataaaatccgcttatctagacttttagctattcttaattggtgacagcatttgaaaatacgcatttctcggtatgcctactactatgctgcgaatttttgagtaagtttttctcctgttggtatccagCTAACAAGATTCGTCTTTGGAACAAGGGTGTTGATTCTGAAAAATTCCATCCCAAATACCGCTCCCATGAAATGCGATTAAGACTAAG

Basic information

species Glycine max
transcript GLYMA18G42540.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G42540.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os07g01030.1 (Oryza sativa), 3'ss of exon 6
gtgaacataaaatccgcttatctagacttttagctattcttaattggtgacagcatttgaaaatacgcatttctcggtatgcctactactatgctgcgaatttttgagtaagtttttctcctgttggtatccagCTAACAAGATTCGTCTTTGGAACAAGGGTGTTGATTCTGAAAAATTCCATCCCAAATACCGCTCCCATGAAATGCGATTAAGACTAAG
            |   | |  ||| || |     | || ||  ||      | ||| | |   |   |||   |     | | |  | ||||  | | ||||| | |  | |  |    | | ||    |||||| || ||||| || ||||||||||||||||||||||| ||||  |||||||||   | |||     | ||||||||   ||| |||| 
-----------gttgtcatggctatacatagttttgtttttttttacctttaccatcttattctg-acatagtttcaccttctt-ttgctat--taccaatttattatgatgggt----catatt----tccagCCAATAAGATACGCCTTTGGAACAAGGGTGTTGATTCAGAAAGCTTCCATCCCCGTTTCCGTAATGACGAAATGCGTGCAAGGCTAAC

upper sequence: GLYMA18G42540.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os03g15840.1 (Oryza sativa), 3'ss of exon 7
gtgaacataaaatccgcttatctagacttttagctattcttaattggtgacagcatttgaaaatacgcatttctcggtatgcctac-tactatgctgcgaatttttgagtaagtttttctcctgttggtatccagCTAACAAGATTCGTCTTTGGAACAAGGGTGTTGATTCTGAAAAATTCCATCCCAAATACCGCTCCCATGAAATGCGATTAAGACTAAG
                                                       ||  | |||    ||   ||  |||  || | |   || |    |    |       ||  ||  | |||   | | |||| || |   |||| ||||||||||| ||||||||||||||||  |||||||| ||||  ||    |||||||||||  | | | | ||
------------------------------------------------------gttaaacaattaagataaatctatatttcttcatttcattccttcatccatcataaccgtagtttccttgtc--tcttcagCAAATAGAGTTCGGCTTTGGAACAAAGGTGTTGATTCTGAAAGTTTCCATCCTAAATTTCGGAAGCATGAAATGCGCATTAAATTGAG

upper sequence: GLYMA18G42540.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 7
gtgaacataaaatccgcttatctagacttttagctattcttaattggtgacagcatttgaaaatacgcatt-tctcggtatgcctactactatgctgcgaatttttgagtaagtttttctcctgttggtatccagCTAACAAGATTCGTCTTTGGAACAAGGGTGTTGATTCTGAAAAATTCCATCCCAAATACCGCTCCCATGAAATGCGATTAAGACTAAG
                              | | | | | |  |      || |  ||| ||| ||  ||| |   | | |   |    | ||  ||  ||    | | |   ||| |||| |  || | | |||||||||  |||||||||||||| ||||| ||||| |||||||  ||||||||    |||   || || |||||||| |||||||||||
-------------------------gtgcatggatgtccattgt-----gcaactgttgcaaaaacaaattgtaatgatgtcaatggatcaatattgaaaac---taaattgctttatctctt--tgctttgcagCTAACAGAATTCGTCTTTGGAATAAGGGGGTTGACTCTGAAAGTTTCCATCCTCGTTACTATTCTCACGAAATGCGTTTAAGACTAAG

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|7924596|gb|AW830622.1|AW830622
EST:     GCCATCTGCTGCCATTGCGGGGGATCTCCTAGCAGCTAGAGTCACAGCAG                         CTAACAAGATTCGTCTTTGGAACAAGGGTGTTGATTCTGAAAAATTCCATC
genomic: GCCATCTGCTGCCATTGCGGGGGATCTCCTAGCAGCTAGAGTCACAGCAGgtgaacataa ... tggtatccagCTAACAAGATTCGTCTTTGGAACAAGGGTGTTGATTCTGAAAAATTCCATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcctactactatgctgcgaatttttgagtaagtttttctcctgttggtatccagCTAACAAGATTCGTCTTTGGAACAAGGGTGTTGATTCTGAAAAATTCCATCCCAAATACCGCTCCCATGAAATGCGATTAAGACTAAG
                                 tttttctcctgtt  CT-rich tract
                   aatttttga  TA-rich tract