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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaactcttctattctatgtttggaatttagttcatgtcttgttttataactttgtaactattgagtttggatatgatgtttagATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGGGATGTAAAGCCTCAAAATCTTTTG

Basic information

species Glycine max
transcript GLYMA06G42840.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G42840.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0028g01810.t01 (Vitis vinifera), 3'ss of exon 4
----gtatgaactcttctattctatgtttggaatttagttcatgtcttgtt--ttataactttgtaactattgagtttggatatgatgtttagATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGGGATGTAAAGCCTCAAAATCTTTTG
    |||   | | |  |  || | | || | || |  ||| | | ||| |  |  | ||  ||    || | |||    |     |  | |||| || |||||  | || ||||| ||||| |  |   | ||||||||||||||||| |||||||||||| || ||
gtatgtaatgattttgtttctccaggatttgcatatttttccttttttggtactcctgaccctga---tagtaagtgaaaaatgcttaatcagATTTTTAGGGGGCTGGCCTATATTCATACAGTGCCTGGGGTTTGCCATAGGGATGTGAAGCCTCAAAATGTTCTG
















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|193500521|gb|FK464052.1|FK464052
EST:     CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAA                         ATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
genomic: CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAAgtatgaactc ... tgatgtttagATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
EST: gi|193656739|gb|FK603771.1|FK603771
EST:     TCTACGTGAAACTGTATACATATCAA                         ATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
genomic: TCTACGTGAAACTGTATACATATCAAgtatgaactc ... tgatgtttagATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
EST: gi|120531619|gb|EH259752.1|EH259752
EST:     CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAA                         ATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
genomic: CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAAgtatgaactc ... tgatgtttagATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
EST: gi|6502169|gb|AW203542.1|AW203542
EST:     CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAA                         ATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
genomic: CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAAgtatgaactc ... tgatgtttagATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
EST: gi|193339974|gb|FK306231.1|FK306231
EST:     CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAA                         ATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
genomic: CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAAgtatgaactc ... tgatgtttagATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
EST: gi|207763538|gb|GD736653.1|GD736653
EST:     CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAA                         ATCTTCA-GGGATTAGCATATATCCATACCGCCCTGCGAGTTTGTCATAGG
genomic: CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAAgtatgaactc ... tgatgtttagATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
EST: gi|193585798|gb|FK542122.1|FK542122
EST:     CTATGAACCAGGGAATGCCTCTCATCTACGTGAAACTGTATACATATCAA                         ATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
genomic: CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAAgtatgaactc ... tgatgtttagATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
EST: gi|42723166|gb|CK769065.1|CK769065
EST:     CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAA                         ATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG
genomic: CTATGAACCAGAGAATGCCTCTCATCTACGTGAAACTGTATACATATCAAgtatgaactc ... tgatgtttagATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttcatgtcttgttttataactttgtaactattgagtttggatatgatgtttagATCTTCAGGGGATTAGCATATATCCATACCGCCCTGCGAGTTTGCCATAGGGATGTAAAGCCTCAAAATCTTTTG
                       ttgtaac  putative branch site (score: 2)
             ttttataactttgtaa  TA-rich tract