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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttcccttttctttttttttgttttctattctgttttaattttttttaatgtggagtagcaacttcggcaaggtaatattcttaataaattatcagGTAAAGCTGCATGGGGTTTCTGTGTTTCTCATGCCATCTGGGATGCTGGGAACGCTCCTTTCTCTAGTTGATGTTTTGCCTCTATTCTCTAACACTGCAT

Basic information

species Glycine max
transcript GLYMA01G04400.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G04400.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os09g22440.1 (Oryza sativa), 3'ss of exon 2
gtattttcccttttctttttttttgttttctattctgttttaattttttttaatgtggagtagcaacttcggcaaggtaatattcttaataaattatcagGTAAAGCTGCATGGGGTTTCTGTGTTTCTCATGCCATCTGGGATGCTGGGAACGCTCCTTTCTCTAGTTGATGTTTTGCCTCTATTCTCTAACACTGCAT
|| | ||  |||  |    ||| | |      || | ||   ||    | |  | |  | |   ||  |     |   ||| ||     |   | ||||||| ||||  || ||  | ||||| ||||||||||||||||||||||| |||||  |  | ||| |  |||||||  | ||| | || || || ||||  |
gtgtgttttcttcccaaagtttctttccctcctttttttaccatgcaatatcttatcaaat--taatcttaatgatacaatctttcgtgtttgtgatcagGTGAAGCAACACGGCATCTCTGTTTTTCTCATGCCATCTGGGATGCTTGGAACTTTGTTATCTTTGATTGATGTCCTACCTTTGTTTTCCAATACTGGTT

upper sequence: GLYMA01G04400.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0026g00920.t01 (Vitis vinifera), 3'ss of exon 2
gtattttcccttttctttttttttgttttctattctgttttaattttttttaatgtggagtagcaacttcggcaaggtaatattcttaataaattatcagGTAAAGCTGCATGGGGTTTCTGTGTTTCTCATGCCATCTGGGATGCTGGGAACGCTCCTTTCTCTAGTTGATGTTTTGCCTCTATTCTCTAACACTGCAT
           | |  ||   ||  | || | || |||||     ||| ||              |  |  |   |  | | |   | |  | | | |||||||||| ||||||  | ||||| |||||||||||||| ||||||||||| ||  | |||||| || | || || || |||||||| |||||||| || |
----------gtatgcttgagttattgttttgttttgtttgggcctttcttttgacaactccatcatataagagtgaaactctcactgaccattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGGACCTTGCTTTCTTTAATAGACGTCTTACCTCTATTTTCTAACACGGCCT
















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|19348942|gb|BM893474.1|BM893474
EST:     AACATACTTTGCAGTTTGATTCATGGGAAGAGCCTGCAGAGTTGGAATAT                         GTAAAGCTGCATGGGGTTTCTGTGTTTCTCATGCCATCTGGGATGCTGGGA
genomic: AACATACTTTGCAGTTTGATTCATGGGAAGAGCCTGCAGAGTTGGAATATgtattttccc ... aaattatcagGTAAAGCTGCATGGGGTTTCTGTGTTTCTCATGCCATCTGGGATGCTGGGA
EST: gi|209716453|gb|BW676929.1|BW676929
EST:     AACATACTTTGCAGTTTGATTCATGGGAAGAGCCTGCAGAGTTGGAATAT                         GTAAAGCTGCATGGGGTTTCTGTGTTTCTCATGCCATCTGGGATGCTGGGA
genomic: AACATACTTTGCAGTTTGATTCATGGGAAGAGCCTGCAGAGTTGGAATATgtattttccc ... aaattatcagGTAAAGCTGCATGGGGTTTCTGTGTTTCTCATGCCATCTGGGATGCTGGGA
EST: gi|6482414|gb|AW201675.1|AW201675
EST:     AACATACTNTGCAGTTTGATTCATGGGAAGAGCCTGCAGAGTTGGAATAT                         GTAAAGCTGCATG
genomic: AACATACTTTGCAGTTTGATTCATGGGAAGAGCCTGCAGAGTTGGAATATgtattttccc ... aaattatcagGTAAAGCTGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttaatgtggagtagcaacttcggcaaggtaatattcttaataaattatcagGTAAAGCTGCATGGGGTTTCTGTGTTTCTCATGCCATCTGGGATGCTGGGAACGCTCCTTTCTCTAGTTGATGTTTTGCCTCTATTCTCTAACACTGCAT
                                      tcttaat  putative branch site (score: 3)
                            aaggtaatattcttaa  TA-rich tract