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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gacacccttgtgcaaattcctgacctgcaatgattggtttgcttgagtttctgttttgtatattttaatttatttcttgtctgatctaatcttcaaccagGTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAG

Basic information

species Glycine max
transcript GLYMA10G35490.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 15
lower sequence: AT5G17530.3 (Arabidopsis thaliana), 3'ss of exon 16
gacacccttgtgcaaattcctgacctgcaatgattggtttgcttgagtttctgttttgtatattttaatttatttcttgtctgatctaatcttcaaccagGTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAG
           |  | |    ||  |   | |  |   | |  |  |  ||   |    ||| | ||| |  |||| | |||  |  ||     ||  || |||| ||||| |||| |||||||||||| ||||| ||| | || |||||||||||||| |||||||||||||| |||
-----------gtgagtgttagatatatgagggctccctagaatctgcctccact--acatagtataaatc-tttcatctcttttgcaaa----aaatagATCCGCGTTTCGGGCTTTGGTGGATGGTTTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAG

upper sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 15
lower sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 16
------gacacccttgtgcaaattcctgacctgcaatgattggtttgcttgagtttctgttttgtatattttaatttatttcttgtctgatctaatcttcaaccagGTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAG
      ||| || |  || |  ||  | |     | || ||  ||| |||   |||  |||||  |  ||  || | |||| |   ||   ||  | |   | ||||| |||| |||||||| ||| |||||||||||||| ||| | || || ||||| ||||| ||||||||||||||||||
ttttctgac-ccatcttgtagctttttca---aaattgttttcttttcttatttttaggttttaaaagttcaaactcatttttccactttgct--tgtgtgaacagGTTCGAGCTTCTGGCTTTGGGGGATGGTTCCTTCTAAGACTCTCCCTTCATGACCCTGTTCTTCCCCTTAACATTGAG
















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|17020916|gb|BM091950.1|BM091950
EST:     CAATTGGCTCTGATCCAAGTCTGCTCAAGGCTCCTGTGAACTATGAAGGG                         GTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCAT
genomic: CAATTGGCTCTGATCCAAGTCTGCTCAAGGCTCCTGTGAACTATGAAGGGgtatgtttat ... cttcaaccagGTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCAT
EST: gi|12687900|gb|BG154296.1|BG154296
EST:     CAATTGGCTCTGATCCAAGTCTGCTCAAGGCTCCTGTGAACTATGAAGGG                         GTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCAT
genomic: CAATTGGCTCTGATCCAAGTCTGCTCAAGGCTCCTGTGAACTATGAAGGGgtatgtttat ... cttcaaccagGTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCAT
EST: gi|58023217|gb|CX709958.1|CX709958
EST:     CAATTGGCTCTGATCCAAGTCTGCTCAAGGCTCCTGTGAACTATGAAGGG                         GTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCAT
genomic: CAATTGGCTCTGATCCAAGTCTGCTCAAGGCTCCTGTGAACTATGAAGGGgtatgtttat ... cttcaaccagGTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCAT
EST: gi|57575221|gb|CX548196.1|CX548196
EST:     CAATTGGCTCTGATCCAAGTCTGCTCAAGGCTCCTGTGAACTATGAAGGG                         GTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCAT
genomic: CAATTGGCTCTGATCCAAGTCTGCTCAAGGCTCCTGTGAACTATGAAGGGgtatgtttat ... cttcaaccagGTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtttctgttttgtatattttaatttatttcttgtctgatctaatcttcaaccagGTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAG
                                      atctaat  putative branch site (score: 3)
                                            tcttc  CT-rich tract
      tgttttgtatatttta  TA-rich tract