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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgagcttttgtaattattatagttataattggctagctgtatgttttaggaattaatcctctgctgtccttttttaacagATATGACCTCAATGTTGACCTTTTGGACGTTCACGCAGACAAGAGTACTTTTCATCGCTTTGATAAGTTCAATCTTAAATACAATCCTTGCGGTCAAAGT

Basic information

species Glycine max
transcript GLYMA01G29470.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G29470.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G416667_T03 (Zea mays), 3'ss of exon 9
---------------gtaatgagcttttgtaattattatagttataattggctagctgtatgttttaggaattaatcctctgctgtcctt-ttttaacagATATGACCTCAATGTTGACCTTTTGGACGTTCACGCAGACAAGAGTACTTTTCATCGCTTTGATAAGTTCAATCTTAAATACAATCCTTGCGGTCAAAGT
                   |  | | | ||||  | |    |    |||    |    ||||||      | |  |    |    | ||| ||||  ||| ||||| || ||||||||  |  | || || || |||||||| || || |||||||| ||||| || |||||||| ||||||||||| || || ||||||
acatgtacattctcccctttcggatatagtaacaaatgagttgcctattcctaatacatatgttgacactactgttggcttataattcttattttctcagGTATGATCTGAATGTTGATTTGCTAGATGTCCATGCAGACAAAAGCACATTTCATCGTTTTGACAAATTCAATCTAAAATACAATCCATGTGGCCAAAGT

upper sequence: GLYMA01G29470.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G38280.1 (Arabidopsis thaliana), 3'ss of exon 8
--------------------------------------------------------------------------------------------------gtaatgagctt----ttgtaattattatagttataattggct--agctgtatgttttaggaattaatcctctgctgtcctttttta------acagATATGACCTCAATGTTGACCTTTTGGACGTTCACGCAGACAAGAGTACTTTTCATCGCTTTGATAAGTTCAATCTTAAATACAATCCTTGCGGTCAAAGT
                                                                                                  ||   |  |      |||    ||||  | || | |     |  | |   |      || |||||| | | | |  |   |||  |      ||||||||||||| || || ||||||||||| ||||| |||||||| ||||| |||||||| |||||||||||||| || || || || ||||| |||||||||
gtaattacatttccaacttcttagaattcccaacttaactctatctgaatctgatggctgcaagactattagattaccctcttaggagcctcctagttgttgcgcaccgcagattgcctgtattgcattttttaccatttttaccatgacaccgaagaaattaacctttttccctttgtttgaacattgcacagATATGACCTGAACGTCGACCTTTTGGATGTTCATGCAGACAAAAGTACCTTTCATCGTTTTGATAAGTTCAACCTAAAGTATAACCCTTGTGGTCAAAGT

upper sequence: GLYMA01G29470.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv08s0105g00570.t01 (Vitis vinifera), 3'ss of exon 8
------------------------------------------------------gtaatgagcttttgtaattattatagttataattggctagctgtatgttttaggaattaatcctctgctgtccttttttaacagATATGACCTCAATGTTGACCTTTTGGACGTTCACGCAGACAAGAGTACTTTTCATCGCTTTGATAAGTTCAATCTTAAATACAATCCTTGCGGTCAAAGT
                                                      | | ||   |||| ||    || ||||    |||  | |  |  |   | |    || |   | |||   |  | ||| ||||| |||||||| |||||||||||||| || ||||| ||||||||||| || |||||||| ||||||||||||||||| || |||||||| ||||||||||||
gtaataaaaatttgtttttttttttaatactatttgaccaagatgtgtgtgtggggagtgtaattttttacaccttttagtc---atttaccattttgaaactctgaatataacctcactgaacttttgtttgaacagGTATGACCTGAATGTTGACCTTTTAGATGTTCATGCAGACAAGAGCACATTTCATCGTTTTGATAAGTTCAATCTCAAGTACAATCCCTGCGGTCAAAGT

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|254332340|gb|GR846385.1|GR846385
EST:     GGGACATATCTAACGTTGGAAGAGGTTTTCAAGAGTTTAGATTTGTCTGG                         ATATGACCTCAATGTTGACCTTTTGGACGTTCACGCAGACAAGAGTACTTT
genomic: GGGACATATCTAACGTTGGAAGAGGTTTTCAAGAGTTTAGATTTGTCTGGgtaatgagct ... tttttaacagATATGACCTCAATGTTGACCTTTTGGACGTTCACGCAGACAAGAGTACTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattggctagctgtatgttttaggaattaatcctctgctgtccttttttaacagATATGACCTCAATGTTGACCTTTTGGACGTTCACGCAGACAAGAGTACTTTTCATCGCTTTGATAAGTTCAATCTTAAATACAATCCTTGCGGTCAAAGT
                         aattaat  putative branch site (score: 3)
                               tcctctgctgtccttt  CT-rich tract
                  ttttaggaattaat  TA-rich tract