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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtctctctctttgtgtgtgtgtgcatgtgttgtagcatgcatgttctgtatagttgatgctggttgttttggtttgggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGAGGAAAACAAAGTCCCGTGCCTATGTAAAGCTCCAAACTGCCGGAAATACATGAATTAGGAAGGATTA

Basic information

species Glycine max
transcript GLYMA06G13330.1
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 23
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 22
gtatgtctctctctttgtgtgtgtgtgcatgtgttgtagcatgcatgttctgtatagttgatgctggttgttttggtttgggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGAGGAAAACAAAGTCCCGTGCCTATGTAAAGCTCCAAACTGCCGGAAATACATGAATTAGGAAGGATTA
||||     || || | | ||    |   |    | |  |       |||  |  |  |||   ||| ||| |  ||||  |||| || || |||||||||||||| ||||| || || |||  ||| || ||||| ||||||||| | || |||||| |||||| ||||||||||  ||  |||
gtatacacatcactctct-tgaacataattcaagtatcaccctttgattcactgaatatgaca-tggctgtgtgtgtttttgcagATACGATTACTTGTTTGATCCAGATGAACCTGATGAATTCAAGGTGCCGTGTCTATGTAAATCCCCCAACTGCAGGAAATTCATGAATTAGAGAGTTTTA

upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 23
lower sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 22
gtatgtctctc-tctttgtgtgtgt-gtgcatgtgttgtagcatgcatgttctgtatagttgatgctg-gttgttttg-gtttgggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGAGGAAAACAAAGTCCCGTGCCTATGTAAAGCTCCAAACTGCCGGAAATACATGAATTAGGAAGGATTA
|||     | | | | | | | |    | | |   |   |   ||  || |    |||||| | |    ||||| | | |||| ||||||||||| ||||| |||||||| || ||| ||||||||  ||| || || ||| |||||||||| || |||||| |||||| |||||||||| |  ||   
gtacacaacgcatttctatatataccattcttcaatctaaagctgattgattgtcatagtttaagaaatgttgtgtggtgttttggcagGTATGATTACTTATTTGATCCAGACGAGGCAGAGGAACTCAAGGTGCCATGCTTATGTAAAGCCCCTAACTGCAGGAAATTCATGAATTAGAATAGAAAG

upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 23
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 23
--------------gtatgtctctctctttgtgtgtgtgtgcatgtgttgtagcatgcatgttctgt-atagttgatgctggttgttttggtttgggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGAGGAAAACAAAGTCCCGTGCCTATGTAAAGCTCCAAACTGCCGGAAATACATGAATTAGGAAGGATTA
               |  | ||     |    |      | ||   |      ||||  |    |||  |  |  |   ||  || | | || |  ||||||||||||||||||||||||| |||||||| || |||  ||| ||||| ||  | |||||||||||||||||| | |||| ||||||||||| |     |
agatttcaaacaaattcagacttcagataaaagaaaacatacaccggccactacatgtttagagtgttgtgataaactatgtatggtgttgtgtttgcagGTATGACTACTTGTTTGATCCCGATGAGCCGGACGAATGCAAGGTCCCCTGTTTGTGTAAAGCTCCAAACTGCAGAAAATTCATGAATTAGGTATTTACA

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|208314326|gb|GE111744.1|GE111744
EST:     CGGATTGTACTCATTGCTAAGACTAACGTGGTTGCCGGTGATGAGTTAAC                         GTATGACTACTTGTTTGATCCTGATGAGCCAGAGGAAAACAAAGTCCCGTG
genomic: CGGATTGTACTCATTGCTAAGACTAACGTGGTTGCCGGTGATGAGTTAACgtatgtctct ... gtttgggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGAGGAAAACAAAGTCCCGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgttgtagcatgcatgttctgtatagttgatgctggttgttttggtttgggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGAGGAAAACAAAGTCCCGTGCCTATGTAAAGCTCCAAACTGCCGGAAATACATGAATTAGGAAGGATTA
                         agttgat  putative branch site (score: 5)
                      tatagtt  TA-rich tract