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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgggagtattacatttcttgttttctttctctgttttatattacatttgttggttattaggcttctgtagttgtctggccttgctgctatctgtgtgtattatgatgtaactttcattataactgcagAGTTGCTGCTGCGCTGCATGATCTCCAGATCGACTGTTGGGTTATGAATGTTGTTCCTGTCAGTGGGTTTAATACCTTGCCTGTTATATATGACCGTGGG

Basic information

species Glycine max
transcript GLYMA14G24900.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatgggagtattacatttcttgttttctttctctgttttatattacatttgttggttattaggcttctgtagttgtctggccttgctgctatctgtgtgtattatgatgtaactttcattataactgcagAGTTGCTGCTGCGCTGCATGATCTCCAGATCGACTGTTGGGTTATGAATGTTGTTCCTGTCAGTGGGTTTAATACCTTGCCTGTTATATATGACCGTGGG
                                               |    |   | |  |  ||| | | ||| |||| |||| |     | | | ||   ||    |||  |||| | ||    | ||  |||| || ||  |  | |||||   | | |||||||||||||||||  ||||||| || || || || || |||||||| ||||| ||||||||||| 
---------------------------------------------gtaaccatcaatcac-accctttttttgtt-tctg-ccttaccaaagtttatttgatcta----gta--tttcttgattttggtagGTTTGCAGCAGCATTAAACGATCTGGGGCTTGACTGTTGGGTTATGAACATTGTTCCCGTTAGCGGATTCAACACCTTGCCAGTTATTTATGACCGTGGA

upper sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 6
gtatgggagtattacatttcttgt-tttctttctctgttttatatta-------catttgttgg---ttattaggcttctgtagttgtct--------------ggccttgctgctatctgtgtgtattatgatg----taactttcattataactgcagAGTTGCTGCTGCGCTGCATGATCTCCAGATCGACTGTTGGGTTATGAATGTTGTTCCTGTCAGTGGGTTTAATACCTTGCCTGTTATATATGACCGTGGG
||||     | | |    |||||  | ||   | ||   ||  |          |||||||      || ||    ||||| | |  |||               |   |  |  | || ||| | | | | |||    | | ||| |||||   |  ||  |||| || || ||   |||| ||||  | || || |||||||||||||||||||| || ||||| || || ||| ||||||| || ||||| ||||| 
gtattttcttttcattcctcttgcatctccaccactccattgcacagattcaggcatttgtgaagtcttcttgaatttctgcattattctttaatgagaacaaaagatctttttttttcagtgggaacttttatgacattgagtttgattatggat--agGTTTGCAGCAGCACTAATTGATTTCCAAGTTGATTGCTGGGTTATGAATGTTGTTCCAGTTAGTGGATTCAACACCCTGCCTGTAATCTATGATCGTGGA
















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|19269401|gb|BM885657.1|BM885657
EST:     CAGGACTACAACCTGAGAAATGTAATGGACATGAGGGCAGGATTTGGAGG                         AGTTGCTGCTGCGCTGCATGATCTCCAGATCGACTGTTGGGTTATGAATGT
genomic: CAGGACTACAACCTGAGAAATGTAATGGACATGAGGGCAGGATTTGGAGGgtatgggagt ... ataactgcagAGTTGCTGCTGCGCTGCATGATCTCCAGATCGACTGTTGGGTTATGAATGT
EST: gi|192314702|gb|FK006628.1|FK006628
EST:     CAGGACTACAACCTGAGAAATGTAATGGACATGAGGGCAGGATTTGGAGG                         AGTTGCTGCTGCGCTGCATGATCTCCAGATCGACTGTTGGGTTATGAATGT
genomic: CAGGACTACAACCTGAGAAATGTAATGGACATGAGGGCAGGATTTGGAGGgtatgggagt ... ataactgcagAGTTGCTGCTGCGCTGCATGATCTCCAGATCGACTGTTGGGTTATGAATGT
EST: gi|192314701|gb|FK006627.1|FK006627
EST:     CAGGACTACAACCTGAGAAATGTAATGGACATGAGGGCAGGATTTGGAGG                         AGTTGCTGCTGCGCTGCATGATCTCCAGATCGACTGTTGGGTTATGAATGT
genomic: CAGGACTACAACCTGAGAAATGTAATGGACATGAGGGCAGGATTTGGAGGgtatgggagt ... ataactgcagAGTTGCTGCTGCGCTGCATGATCTCCAGATCGACTGTTGGGTTATGAATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctggccttgctgctatctgtgtgtattatgatgtaactttcattataactgcagAGTTGCTGCTGCGCTGCATGATCTCCAGATCGACTGTTGGGTTATGAATGTTGTTCCTGTCAGTGGGTTTAATACCTTGCCTGTTATATATGACCGTGGG
                                           ttataac  putative branch site (score: 2)
                                  taactttcattataa  TA-rich tract