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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaaatatttgtgttttttttttttttcacgttagtttggtcttgtgagttgtgattgaattagtgcaatctgatagaggcagtgtcccatttcttacagGGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTGGCCCAAGTTGCAAGTTTGACCACCCAATGGAAATTTTCTCTCATAATATCT

Basic information

species Glycine max
transcript GLYMA10G31370.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G31370.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os11g28270.1 (Oryza sativa), 3'ss of exon 6
acaaatatttgtgttttttttttttttcacgttagtttggt-cttgtga-gttgtgattgaattagtgcaatctgatagag-gcagtgtcccatttcttacagGGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTGGCCCAAGTTGCAAGTTTGACCACCCAATGGAAATTTTCTCTCATAATATCT
     |  |  ||   | ||        |    |  |   | | |   |  | |    || |  ||||    || ||     |     |     | ||| |||||||| ||  | ||    ||||||||||| |||||||| ||||| ||||| || | |||||| ||||| || ||||||| || | |     ||  | || 
---gtttatcatgcaatgttcaaaaccgataaaacataaatacatacaatatagaagatggacaagtgttgcctaatcctctgtttctttttcctgcttgcagGGAGAGCCCATATGCACATTCTATTCTCGCTATGGCATCTGCAAGTTTGGTCCGAATTGCAAATTTGATCATCCAATGGGAACTGTGATGTATGGTCTCG

upper sequence: GLYMA10G31370.2 (Glycine max), 3'ss of exon 5
lower sequence: AT3G02830.1 (Arabidopsis thaliana), 3'ss of exon 6
acaaatatttgtgttttttttttttttcacgttagtttggtcttgtgagttgtgattgaattagtgca--atctgatagaggcagtgtcccatttcttacagGGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTGGCCCAAGTTGCAAGTTTGACCACCCAATGGAAATTTTCTCTCATAATATCT
         |  | |       || | ||   |   |||||  |      |  |||| |||   ||||   | ||||        | || ||    | | |||||||||| |||||||| |||||| | || ||||| || ||||||||||| ||||| || || ||||| |||||||||  | | ||| |  |  | | | 
--------gtaagctcaaagacttgtgcataattacttggttct-----cttcgattaaatctctgcattgtttgattttttttctttctcaaaa-tgatagGGAGAACCGTTGTGTGTGTTCTATACACGCTATGGAATCTGCAAATTTGGTCCAAGCTGTAAATTTGATCACCCAATGCGAGTATTCACATACGACAACA

upper sequence: GLYMA10G31370.2 (Glycine max), 3'ss of exon 5
lower sequence: AT5G16540.3 (Arabidopsis thaliana), 3'ss of exon 4
acaaatatttgtgttttttttttttttcacgttagtttggtcttgtgagttgtgattgaattagtgcaatctgatagaggca-gtgtcccatttcttacagGGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTGGCCCAAGTTGCAAGTTTGACCACCCAATGGAAATTTTCTCTCATAATATCT
                  |    |  | |      |  | |  | |   || |  |   |||| ||   | || || |  |  ||  |   |||   ||||||||||||  |||| || ||||||||||| ||||| || ||||| ||||| ||||| || || ||||| ||||| |||  | | ||| || | || | | 
-----------------gtaagctaataaaagacttcagattctttcctttatagtctcatta-tgtggtttggtaaattcttgttgctggtttgaaacagGGAGAACCACTGTGCGTGTTCTATTCTCGGTATGGGATCTGCAAGTTTGGTCCAAGCTGTAAATTTGATCACCCGATGCGAGTCTTCACTTACAACAACA

upper sequence: GLYMA10G31370.2 (Glycine max), 3'ss of exon 5
lower sequence: AT5G16540.2 (Arabidopsis thaliana), 3'ss of exon 5
----acaaatatttgtgttttttttttttttcacgttagtttggtcttgtgagttgtgattgaattagtgcaatctgatagaggca-gtgtcccatttcttacagGGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTGGCCCAAGTTGCAAGTTTGACCACCCAATGGAAATTTTCTCTCATAATATCT
     |     |||  |     |    |  | |      |  | |  | |   || |  |   |||| ||   | || || |  |  ||  |   |||   ||||||||||||  |||| || ||||||||||| ||||| || ||||| ||||| ||||| || || ||||| ||||| |||  | | ||| || | || | | 
gttggccttcctttacgcccggtaagctaataaaagacttcagattctttcctttatagtctcatta-tgtggtttggtaaattcttgttgctggtttgaaacagGGAGAACCACTGTGCGTGTTCTATTCTCGGTATGGGATCTGCAAGTTTGGTCCAAGCTGTAAATTTGATCACCCGATGCGAGTCTTCACTTACAACAACA

upper sequence: GLYMA10G31370.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 6
acaaatatttgtgttttttttttttttcacgttagtttggtcttgtgagttgtgattgaattagtgc--aatctgatagaggcagtgtcccatttcttacagGGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTGGCCCAAGTTGCAAGTTTGACCACCCAATGGAAATTTTCTCTCATAATATCT
|| |  ||   |   | |  ||    |   |||  | || | |   ||||  |  |  | ||| |    ||| |||| ||    || |    |||   ||||||||||||||||||  | || |||||||||||||| || ||||||||||| ||||||||||||||||||||||| |||| ||| ||| |  | ||| | |
accataatgcataaatgtacttcaactttggttgctctgatata--gagtccttgtctagttatttataaatttgatggatctggtttttatttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGTCCAAGTTGCAAGTTTGACCACCCTATGGGAATCTTCGCATACAATCTGT

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|13312087|gb|BG405738.1|BG405738
EST:     TTCCTGCTCCTAACTGTGTCTTGAGTCCCATAGGCCTTGCTTTACGTTCT                         GGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTGGC
genomic: TTCCTGCTCCTAACTGTGTCTTGAGTCCCATAGGCCTTCCTTTACGTCCTgtaagttggg ... tttcttacagGGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTGGC
EST: gi|10843882|gb|BF067236.1|BF067236
EST:     TTCCTGCTCCTAACTGTGTCTTGAGTTCCATAGGCCTTCCTTTACGTACT                         GGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTTGG
genomic: TTCCTGCTCCTAACTGTGTCTTGAGTCCCATAGGCCTTCCTTTACGTCCTgtaagttggg ... tttcttacagGGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTT-GG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagttgtgattgaattagtgcaatctgatagaggcagtgtcccatttcttacagGGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTGGCCCAAGTTGCAAGTTTGACCACCCAATGGAAATTTTCTCTCATAATATCT
                       atctgat  putative branch site (score: 4)
                                        tcccatttctt  putative PPT
         attgaatta  TA-rich tract