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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatccctattcactgatcaaagcttctcaacaaattttgtaaatttctcaacaatttaatttaattttcctttcgttggtttcagGGACGAGAGGTTCTCGAAGGAGGAGCAATACGAGTGGTTCAAGGATTATTCCCATTTTCGCCACTTGATTCAACCCCATCTCACGCCCCATTCCGCT

Basic information

species Glycine max
transcript GLYMA11G12910.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G12910.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os11g35340.1 (Oryza sativa), 3'ss of exon 1
---------------------gtaatccctattcactgatcaaagcttctcaaca-aattttgtaaatttctcaacaatttaatttaattttcctttcgttggtttcagGGACGAGAGGTTCTCGAAGGAGGAGCAATACGAGTGGTTCAAGGATTATTCCCATTTTCGCCACTTGATTCAACCCCATCTCACGCCCCATTCCGCT--
                      |     || ||| ||| ||   |||   |  |        | |    ||||    || | ||          | |    |    |||||||||| |||||  |||||||||||| || ||||||||||||||||  ||||| || |||||| |  |    ||||    | | |||| | |  ||  
gtttggttccccttttttctttttccttctcttctctgctcgcggctcgccggcgcggcagcggatgggtctcgctgatgtgatggctggcctgtgtgcgcgcgcgcagGGACGAGCGGTTCGGGAAGGAGGAGCACTATGAGTGGTTCAAGGATTTCTCCCACTTCCGCCACCTCCTC--GCCCCGCTCCTCTCCCCTTCCATCTCG

upper sequence: GLYMA11G12910.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G109032_T02 (Zea mays), 3'ss of exon 1
-----------------------gtaatccctattcactgatcaaagcttctcaacaaattttgtaaattt--ctcaacaatttaatttaattttcctttcgttggtttcagGGACGAGAGGTTCTCGAAGGAGGAGCAATACGAGTGGTTCAAGGATTATTCCCATTTTCGCCACTTGATTCAACCCCATCTCACGCCCCATTCCGCT--
                        | | ||       |||| | |       || ||     | | | | |  | | |||||   |     |   | |   |  | |  |||||||| | |||||  |||||||||||| ||||||||||||||||| |  || || || |||||| |  |    | ||    | | |||| | || ||  
gttcgctctcccccttctctgcttttaccctacccttctgaccgagctgaagcagcaggcaatctgattctgacgcgacaatg-gacggcctggccgtgcggccgctcgcagGGACGCGCGGTTCGGGAAGGAGGAGCACTACGAGTGGTTCAAGGACTTCTCGCACTTCCGCCACCTCCTC--GCGCCGCTCCTCTCCCCGTCCCTCTCG
















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|298182183|gb|HO026358.1|HO026358
EST:     GATACGCCAACACCTTCAACTGCTTTGACCTACCTTAATCCTTCCTACTG                         GGACGAGAGGTTCTCGAAGGAGGAGCAATACGAGTGGTTCAAGGATTATTC
genomic: GATACGCCAACACCTTCAACTGCTTTGACCTACCTTAATCCTTCCTACTGgtaatcccta ... ttggtttcagGGACGAGAGGTTCTCGAAGGAGGAGCAATACGAGTGGTTCAAGGATTATTC
EST: gi|298173135|gb|HO020119.1|HO020119
EST:     GATACGCCAACACCTTCAACTGCTTTGACCTACCTTAATCCTTCCTACTG                         GGACGAGAGGTTCTCGAAGGAGGAGCAATACGAGTGGTTCAAGGATTATTC
genomic: GATACGCCAACACCTTCAACTGCTTTGACCTACCTTAATCCTTCCTACTGgtaatcccta ... ttggtttcagGGACGAGAGGTTCTCGAAGGAGGAGCAATACGAGTGGTTCAAGGATTATTC
EST: gi|7145881|gb|AW507803.1|AW507803
EST:     GATACGCCAACACCTTCAACTGCTTTGACCTACCTTAATCCTTCCTACTG                         GGACGAGAGGTTCTCGAAGGAGGAGCAATACGAGTGGTTCAAGGATTATTC
genomic: GATACGCCAACACCTTCAACTGCTTTGACCTACCTTAATCCTTCCTACTGgtaatcccta ... ttggtttcagGGACGAGAGGTTCTCGAAGGAGGAGCAATACGAGTGGTTCAAGGATTATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaattttgtaaatttctcaacaatttaatttaattttcctttcgttggtttcagGGACGAGAGGTTCTCGAAGGAGGAGCAATACGAGTGGTTCAAGGATTATTCCCATTTTCGCCACTTGATTCAACCCCATCTCACGCCCCATTCCGCT
                            atttaat  putative branch site (score: 4)
                                  ttttcctttcgtt  CT-rich tract
     tttgtaaatttctcaa  TA-rich tract