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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atctagttctagaagcatcacttatggaaaatttgccactttctggttccctatttctcatgttcttatcttttctaatgattattttatcatgtcgcagTTACATGTGGAATATCATTTCCCTTCAAATCCAAAATACTTCGACATCAGCTGCTGAAATGCCGCTGTCTCTCAGTGATTTTTGTATATATAGTTGTAAA

Basic information

species Glycine max
transcript GLYMA04G37640.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G37640.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv17s0000g00570.t01 (Vitis vinifera), 3'ss of exon 5
atctagttctagaagcatcacttatggaaaatttgccactttctggttccc-tatttctcatgttcttatcttt--tctaatgattattt--tatcatgtcgcagTTACATGTGGAATATCATTTCCCTTCAAATCCAAAATACTTCGACATCAGCTGCTGAAATGCCGCTGTC-TCTCAGTGATTT-TTGTATATATAGTTGTAAA
      || ||||    |    | |    | |   |||  |  |  |||   |||      |||||| | |  |  ||| |  |    ||  |    | | |||| |||| ||||||||| |||| |||||| ||||||||||||| |||||||||  ||  || |||   ||  ||||||    |  |||| | | ||  | |   
-----cttttagatttgtttaatcttcggagtcatccaagtaatttttcttatataatctgtgttctgaaccctaatcttacaaggggttgtttctgtattgcagCTACAAGTGGAATATGATTTTCCTTCAGATCCAAAATACTTTGACATCAGCAACTAGAAGGCCCAGGTGATCTCAGAATCTGGTTGTGTCTGTACATTTG--
















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|16106180|gb|BI893920.1|BI893920
EST:     ATATGAGGGTAGTGTTTCCTCAACGTCATTCAGATTCTGATGAGGGCAAG                         TTACATGTGGAATATCATTTCCCTTCAAATCCAAAATACTTCGACATCAGC
genomic: ATATGAGGGTAGTGTTTCCTCAACGTCATTCAGATTCTGATGAGGGCAAGgtatgtaaat ... catgtcgcagTTACATGTGGAATATCATTTCCCTTCAAATCCAAAATACTTCGACATCAGC
EST: gi|51341160|gb|CO982477.1|CO982477
EST:     ATATGAGGGTAGTGTTTCCTCAACGTCATTCAGATTCTGATGAGGGCAAG                         TTACATGTGGAATATCATTTCCCTTCAAATCCAAAATACTTCGACATCAGC
genomic: ATATGAGGGTAGTGTTTCCTCAACGTCATTCAGATTCTGATGAGGGCAAGgtatgtaaat ... catgtcgcagTTACATGTGGAATATCATTTCCCTTCAAATCCAAAATACTTCGACATCAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttccctatttctcatgttcttatcttttctaatgattattttatcatgtcgcagTTACATGTGGAATATCATTTCCCTTCAAATCCAAAATACTTCGACATCAGCTGCTGAAATGCCGCTGTCTCTCAGTGATTTTTGTATATATAGTTGTAAA
                           ttctaat  putative branch site (score: 2)
                                       ttttatc  putative PPT
                 ttcttatcttttctaa  TA-rich tract