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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagtattttctcctttcttttcacatcttgtaattacttctgaacaaaaatatccgtatctcttccactgtaagttgtaatgtatcctgacttttgctttcttagGTTGTAATGAATACAAATGGCTATAGTCTTCCTGTTGATATATGGAGCTTGGGATGCACAATTCTTGAAATGGCAACATCAAAGCCTCCTTGGAATCAGT

Basic information

species Glycine max
transcript GLYMA04G39110.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39110.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g35010.1 (Oryza sativa), 3'ss of exon 7
gtaaagtattttctcctttcttttcacatcttgtaattacttctgaacaaaaatatccgtatctcttccactgtaagttgtaatgtatcctgacttttgctttcttagGTTGTAATGAATACAAATGGCTATAGTCTTCCTGTTGATATATGGAGCTTGGGATGCACAATTCTTGAAATGGCAACATCAAAGCCTCCTTGGAATCAGT
        | | |   || || || ||| |   |       | ||    |   |||    || |  | |||    |   ||        || | | |         |||||||||||||||  || || |||| |||| | ||||||||||||||| | ||||| |||||| |||| ||||||||  | |||| ||| ||| ||| ||
-------gtatacggtttcctgtttacaacacttggagcactgtgtcatatgttatgta-atttacttcaccaagaacggtttgtccaactaaatgtaaaacgtgcagGTTGTAATGAATAACAAAGGATATAATCTTGCGGTTGATATATGGAGCCTTGGATGTACAATTATTGAGATGGCAACCGCGAAGCATCCCTGGTATCCGT

upper sequence: GLYMA04G39110.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G53570.5 (Arabidopsis thaliana), 3'ss of exon 7
----gtaaagtattttctcctttcttttcacatcttgtaatt----acttctgaacaaaaatatccgtatctc-ttccactgtaagttgtaatgtatcctgacttt-tgctttcttagGTTGTAATGAATACAAATGGCTATAGTCTTCCTGTTGATATATGGAGCTTGGGATGCACAATTCTTGAAATGGCAACATCAAAGCCTCCTTGGAATCAGT
     |  | |||| |  | ||| |||| | | ||| |   |    | || || |    ||   |  ||| |  || ||    |      |    ||| ||  |   | ||||   ||||||| ||||    ||||||||| | || | | || ||||| ||||| ||||| || || ||||| |||||||||||||||||||| |||||||  ||||
gtagttctactattctaccttttttttttataacttttctctggcaagttgtgcagtggaaggccattatgttgttgcagctgatagaaaatcacatcatgcttccgttcttttccagGTTGTGATGAGCCAAAATGGCTACACTCATGCAGTCGATATCTGGAGTTTGGGTTGTACTATTCTGGAAATGGCAACATCAAAGCCACCTTGGAGCCAGT

upper sequence: GLYMA04G39110.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 7
----------------------------------------------------------------------------------------------gtaaagtattttctcctttcttttca--catcttgtaattacttctgaacaaaaatatccgtatctcttccactgtaagttgtaatgtatcctgacttttgctttcttagGTTGTAATGAATACAAATGGCTATAGTCTTCCTGTTGATATATGGAGCTTGGGATGCACAATTCTTGAAATGGCAACATCAAAGCCTCCTTGGAATCAGT
                                                                                                | |  |   |   |  |   ||||   || || |  ||| |||    |   ||| |   |    | |  ||   |||||    ||| |       | | |  ||| ||||||||||||||||||||||||| || ||| | || ||||| |||||||| ||||| |||||||||||||||||||||||||| || ||||||| ||| |
gtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttctttttatttccttgcttcaatgttttttctccgtgaacaccaagtttccttgtgtttg----tgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT

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|10845792|gb|BF068837.1|BF068837
EST:     CTTCCTCCATGCTATCTTTCAAAGGGAGTCCATACTGGATGGCACCCGAG                         GTTGTAATGAATACAAATGGCTATAGTCTTCCTGTTGATATATGGAGCTTG
genomic: CTTCCTCCATGCTATCTTTCAAAGGGAGTCCATACTGGATGGCACCCGAGgtaaagtatt ... gctttcttagGTTGTAATGAATACAAATGGCTATAGTCTTCCTGTTGATATATGGAGCTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatccgtatctcttccactgtaagttgtaatgtatcctgacttttgctttcttagGTTGTAATGAATACAAATGGCTATAGTCTTCCTGTTGATATATGGAGCTTGGGATGCACAATTCTTGAAATGGCAACATCAAAGCCTCCTTGGAATCAGT
                                  tcctgac  putative branch site (score: 2)
                                        cttttgctttctt  CT-rich tract
                           taatgtat  TA-rich tract