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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctcctgcaacaattgactgaaaccttggtagtctgttttctttacccttatgcttgttatctttgaacacttccaactccaagtactacatttgaaaatctcctttacatcttgccgatgcactaaatctcagGGAACAGTCATCACAAGCTATTCTGAAAGCCTTGAGGGATGAAAATCTGAATGATCCTCGTGAACGAATTGAGATTGCACAAAGCCATGTTTTCTACAAG

Basic information

species Glycine max
transcript GLYMA03G28970.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G28970.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g71280.1 (Oryza sativa), 3'ss of exon 5
gtaatctcctgcaacaattgactgaaaccttggtagtctgttttctttacccttatgcttgttatctttgaacacttcca--actccaagtactacatttga--aaatctcctttacatcttg---ccgatgcactaaatctcagGGAACAGTCATCACAAGCTATTCTGAAAGCCTTGAGGGATGAAAATCTGAATGATCCTCGTGAACGAATTGAGATTGCACAAAGCCATGTTTTCTACAAG
                                           ||||     | | | |    ||| |  |    ||| |  |||     ||  |||| ||    || |  |  |  |||||     |  ||   | |    |||||| |  ||  ||  || ||||||| ||||| |||| |||||||   ||||||||||||||||| | |||||||| || ||||||||||  ||||||   
-------------------------------------------tcttacatgtcaaggtca--atcatcaactttttctataacttagtataacacatctgtttcaaccagcaatgtatctttaactcactgttttgatctacagGGAGCTCTCGACAAGAGATATTCTGCAAGCCCTGAGAGATGAAACCATGAATGATCCTCGTGAAAGGATTGAGATGGCGCAAAGCCATGCATTCTACCGC

upper sequence: GLYMA03G28970.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G155348_T01 (Zea mays), 3'ss of exon 5
-----------gtaatctc-ctgcaacaattgactgaaaccttggtagtctgttt------tctttacccttatgcttgttatctttgaacacttccaactccaagtactacatttgaaaatctcctttacatcttgccgat--gcactaaatct----------cagGGAACAGTCATCACAAGCTATTCTGAAAGCCTTGAGGGATGAAAATCTGAATGATCCTCGTGAACGAATTGAGATTGCACAAAGCCATGTTTTCTACAAG
           |||   || || |      |   || |   ||   ||| || ||      |   | ||    |||     |  |  |||     |||  ||  | |  | ||||| |     | | ||  |   | | |||  |   || | ||          |||||| |   || ||   |  |||||  ||||| ||||||| ||||   ||||||||||||| ||| | |||||||| |||||||||||||  ||||||   
gtttgtgctatgtatcatcactactctccatatttggagagtttacagtgtgcttgaggagtgagtgccgcagtgcagacgaagtgagaa-gtgaccacttctcactcattcattttattggtttcattttactctcctgattagatatagacctgacttatgtgcagGGAGCTCCCAGCAAGGGACATTCTTCAAGCCCTGAGGGACGAAACGATGAATGATCCTCGGGAAAGGATTGAGATGGCACAAAGCCATGCATTCTACCGC
















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|208119523|gb|GD920172.1|GD920172
EST:     TTTGATATCAAG                         GGAACAGTCATCACAAGCTATTCTGAAAGCCTTGAGGGATGAAAATCTGAA
genomic: TTTGATATCAAGgtaatctcct ... taaatctcagGGAACAGTCATCACAAGCTATTCTGAAAGCCTTGAGGGATGAAAATCTGAA
EST: gi|209729603|gb|BW651904.1|BW651904
EST:     GTAGAGCTCTGCCCTATCTTGAAGACACTCTACAAAATTTTGATATCAAG                         GGAACAGTCATCACAAGCTATTCTGAAAGCCTTGAGGGATGAAAATCTGAA
genomic: GTAGAGCTCTGCCCTATCTTGAAGACACTCTACAAAATTTTGATATCAAGgtaatctcct ... taaatctcagGGAACAGTCATCACAAGCTATTCTGAAAGCCTTGAGGGATGAAAATCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaagtactacatttgaaaatctcctttacatcttgccgatgcactaaatctcagGGAACAGTCATCACAAGCTATTCTGAAAGCCTTGAGGGATGAAAATCTGAATGATCCTCGTGAACGAATTGAGATTGCACAAAGCCATGTTTTCTACAAG
                                          cactaaa  putative branch site (score: 2)
           atttgaaaat  TA-rich tract