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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtctttatcctattccctttcttgttataatatgaatttgggattttctgattagtatttttaatatatttgagtgctttgcagATTTGCAGCTGCATTGATTGATCAGAGTATGGACAGTTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAATACCTTGCCTGTCATATATGACCGTGGG

Basic information

species Glycine max
transcript GLYMA02G41770.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G41770.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G39750.1 (Arabidopsis thaliana), 3'ss of exon 6
gtattgtctttatcctattccctttcttgttataatatgaatttgggattttctgattagtatttttaatatatttgagtgcttt--gcagATTTGCAGCTGCATTGATTGATCAGAGTATGGACAGTTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAATACCTTGCCTGTCATATATGACCGTGGG
          |||   ||    ||||||  |    ||| | |   ||  | |  | |||    | || || ||||    ||  ||  ||||||||||||||||| | | |||||| |   | ||  | |||||| | |  ||||||||||| ||||| || || || ||||||||||| ||||||||||| 
---------gtatgaaataatatttctttgttaggtatta-tacaggtatcttagcttatctctcttcatttattcctttggctttggcagATTTGCAGCTGCACTAAATGATCATAAACTCGATTGCTGGGTTCTAAGCGTGGTTCCTGTCAGTGGGCCTAACACATTGCCTGTCATTTATGACCGTGGA

upper sequence: GLYMA02G41770.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0019g02250.t01 (Vitis vinifera), 3'ss of exon 6
----------------------gtattgtctttatcct-attccctttcttgttataata--tgaatttgggattttctgattagtatttttaatat--atttgagtgctttg-cagATTTGCAGCTGCATTGATTGATCAGAGTATGGACAGTTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAATACCTTGCCTGTCATATATGACCGTGGG
                      ||    | |  ||  | |||   |  |||||  |  |   ||   ||    |    |  |   ||||||||   |  |||| |  | |||| ||||||||| ||||||||||  ||    |   | ||  | |||||| | ||||| |||||||| || || || ||||||||||||||||||||||| ||||| 
gtaccctattcatctcaagcttgttccatttcaattttcatttattgccttgtggtccttgttgtgcttcatttgaattactccatatttttatggttaatttcatggttttggcagATTTGCTGCTGCATTGACCGAAAGAAAAGTTGATTGCTGGGTTCTTAATGTTGTTCCTGTGAGCGGGCCCAATACCTTGCCTGTCATATATGATCGTGGA
















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|298173781|gb|HO017117.1|HO017117
EST:     AAGAAGATGAGATTAAGAAATGTTATGGACATGAGAGCTGGTTTTGGAGG                         ATTTGCAGCTGCATTGATTGATCAGAGTATGGACAGTTGGGTTATGAATGT
genomic: AAGAAGATGAGATTAAGAAATGTTATGGACATGAGAGCTGGTTTTGGAGGgtattgtctt ... tgctttgcagATTTGCAGCTGCATTGATTGATCAGAGTATGGACAGTTGGGTTATGAATGT
EST: gi|151400792|gb|EV270606.1|EV270606
EST:     AAGAAGATGAGATTAAGAAATGTTATGGACATGTGAGCTGGTTTTGGAGG                         ATTTGCAGCTGCATTGATTGATCAGAGTATGGACAGTTGGGTTATGAATGT
genomic: AAGAAGATGAGATTAAGAAATGTTATGGACATGAGAGCTGGTTTTGGAGGgtattgtctt ... tgctttgcagATTTGCAGCTGCATTGATTGATCAGAGTATGGACAGTTGGGTTATGAATGT
EST: gi|15287021|gb|BI470912.1|BI470912
EST:     AAGAAGATGAGATTAAAAAATGTTATGGACATGAGAGCTGGTTTTGGAAG                         ATTTGCAGCTGCATTGATTGATCAGAGTATGGAC
genomic: AAGAAGATGAGATTAAGAAATGTTATGGACATGAGAGCTGGTTTTGGAGGgtattgtctt ... tgctttgcagATTTGCAGCTGCATTGATTGATCAGAGTATGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatgaatttgggattttctgattagtatttttaatatatttgagtgctttgcagATTTGCAGCTGCATTGATTGATCAGAGTATGGACAGTTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAATACCTTGCCTGTCATATATGACCGTGGG
                             ttttaat  putative branch site (score: 3)
             attttctgattagtat  TA-rich tract