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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctttgagggttgagttaggctcattttgttttcatttgtaaccatttcaaagttgggtaacctgaaaaaattctttattttctgaatccatcttacagGTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCAGGCTTAGCAGTTGCACTGA

Basic information

species Glycine max
transcript GLYMA14G36280.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G36280.2 (Glycine max), 3'ss of exon 9
lower sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 9
tgctttgagggttgagttaggctcattttgttttcatttgtaaccatttcaaagttgggtaacctgaaaaaattctttattttctgaatccatcttacagGTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCAGGCTTAGCAGTTGCACTGA
     |||   ||  |||      ||| | | |  ||  ||||  |  |   ||||     ||     ||  || | |  ||| | | |  | || | ||||  ||||||||||||| |||| ||| || || ||||||||||||||||| |||||||||||||| |||||||||||  | ||  |||||||||| ||||
----gtgaatttttcgtttc-tatattgtatatgaatgagtaaataacttccagtt-----actgactaattttatgtcgtttgtaactttacctgatagGTCATGTATGACTATGAGGACAGAATTAATCAAGCTGTTTTTCCTGGACTGCAAGGTGGTCCACATAATCACACTATAACGGGTCTAGCAGTTGCTCTGA

upper sequence: GLYMA14G36280.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 3'ss of exon 9
tgctttgagggttgagttaggctcattttgttttcatttgtaaccatttcaaagttgggtaacctgaaaaa-attctttattttctgaat-ccatcttacagGTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCAGGCTTAGCAGTTGCACTGA
|  ||      |||  |  || |  |||   |||     | ||  | |||| |  ||  | | |||  | | ||| || | |   ||||| ||||| ||||||||||||||||||||||||||||||| || |||||||| |||||||||||||||||||| ||||||||||| |||||||| ||||||||||||||| |||
tttttccccaattggttatggtttctttcagttttgaaagcaa--aattcataagtgaattatctggcacacatttttcaatggttgaattccatcctacagGTGTTGTATGACTATGAAGACAAAATCAATCAGGCTGTCTTTCCTGGACTTCAAGGTGGACCACACAATCATACTATTTCTGGCTTAGCAGTTGCATTGA

upper sequence: GLYMA14G36280.2 (Glycine max), 3'ss of exon 9
lower sequence: PP1S79_54V6.1 (Physcomitrella patens), 3'ss of exon 9
------tgctttgagggttgagttaggctcattttgttttcatttgtaaccatttcaaagttgggta-acctgaaaaaattctttattttctgaatccatcttacagGTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCAGGCTTAGCAGTTGCACTGA
        ||   | |   |  |  ||   ||  || | ||   | |          | ||||| || |  | |    | | ||| |  ||  |  |     | ||| | || || ||||||||||||||||| ||    ||||||||||| ||||| ||||| ||||| ||||| ||||| ||| ||||  | || |||||  |||
tgtcttcactccaacgaaagcataggggcgatgctggtctcgcgtatg------cggaggttggttacatttcagctgaatgtttctgatcc-atcctgctgtgcagATTTTCTACGACTATGAAGACAAAATTAATGCTGCTGTTTTTCCAGGACTACAAGGGGGTCCTCACAACCACACCATTGCAGGACTTGCTGTTGCCTTGA

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|192312199|gb|FK003920.1|FK003920
EST:     TGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAGCAAGGGAAGGAA                         GTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTT
genomic: TGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGGAAGGAAgtgagtttaa ... catcttacagGTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTT
EST: gi|19348549|gb|BM893081.1|BM893081
EST:     TGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGGAAGGAA                         GTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTT
genomic: TGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGGAAGGAAgtgagtttaa ... catcttacagGTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTT
EST: gi|192312198|gb|FK003919.1|FK003919
EST:     TGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAGCAAGGGAAGGAA                         GTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTT
genomic: TGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGGAAGGAAgtgagtttaa ... catcttacagGTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTT
EST: gi|16347928|gb|BI973523.1|BI973523
EST:     TGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGGAAGGAA                         GTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTT
genomic: TGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGGAAGGAAgtgagtttaa ... catcttacagGTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttcaaagttgggtaacctgaaaaaattctttattttctgaatccatcttacagGTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCAGGCTTAGCAGTTGCACTGA
           gggtaac  putative branch site (score: 3)
                                           tccatctt  putative PPT
                     aaaaaattctttattt  TA-rich tract