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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatacctagcaattgcttctgattaggaaaatgtatgcaccttaattgtaatctattgcttcccagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGTAAAGGCTTTGGTTTCGATGTTGATAACACCATTGGCAG

Basic information

species Glycine max
transcript GLYMA03G01960.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G01960.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G030299_T02 (Zea mays), 3'ss of exon 4
---gtgagatacctagcaattgc---ttctgattaggaaaatgtatgcaccttaattg--taatctattgcttcc---cagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGTAAAGGCTTTGGTTTCGATGTTGATAACACCATTGGCAG
      | ||||  |    || |    | | |||       | | |    |||   |   |||  ||   ||| |   ||||| ||| | || ||||||||||||||||||||||| ||||  ||||||  |||||| | |||||||   ||||| || || ||||| ||
gtaactatatacgaaaggttttcaagctttaattcaccctttttgttattcttttgtaattaacataactctttctgtcagTCAGATTTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGATAAAGGATATGGTTTCCCGGTTGACAATACTATTGGAAG

upper sequence: GLYMA03G01960.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g01810.t01 (Vitis vinifera), 3'ss of exon 4
gtgagatacctagcaattgcttctgattaggaaaatgtatgcaccttaattgtaatc--tattgcttcccagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGTAAAGGCTTTGGTTTCGATGTTGATAACACCATTGGCAG
||||| | |     | || |||   ||||  |   ||    ||  ||   | |||    ||||| ||  ||| ||| | |||||||||||||||||||||||||||||||||||||||||   ||||| ||||| || ||||||||||| ||||| |||||
gtgaggttcgacaaattttcttgacattattatggtgataacaatttg-ctataactgttattggttatcagGCTGTTTTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTGAAAAAGGATTTGGGTTTGATGTTGATAATACCATAGGCAG
















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|197661888|gb|FD480297.1|FD480297
EST:     CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAG                         TCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT
genomic: CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAGgtgagatacc ... tgcttcccagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT
EST: gi|192313607|gb|FK007283.1|FK007283
EST:     CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAG                         TCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT
genomic: CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAGgtgagatacc ... tgcttcccagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT
EST: gi|192318364|gb|FK007282.1|FK007282
EST:     CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAG                         TCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT
genomic: CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAGgtgagatacc ... tgcttcccagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT
EST: gi|298191837|gb|HO035919.1|HO035919
EST:     CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAAAGGCTATCAG                         TCTGATCTAGGGAG
genomic: CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAGgtgagatacc ... tgcttcccagTCTGATCTAGGGAG
EST: gi|209708526|gb|BW668137.1|BW668137
EST:     CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAG                         TCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTG
genomic: CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAGgtgagatacc ... tgcttcccagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTG
EST: gi|120496729|gb|EH224896.1|EH224896
EST:     CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAG                         TCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT
genomic: CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAGgtgagatacc ... tgcttcccagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT
EST: gi|6133930|gb|AW132323.1|AW132323
EST:     CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAG                         TCTGATCTATGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT
genomic: CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAGgtgagatacc ... tgcttcccagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT
EST: gi|298164909|gb|HO010906.1|HO010906
EST:     CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAG                         TCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT
genomic: CTTTCATCATTATGGAATTCATACAATTTGGTGCATCTAGAGGCTATCAGgtgagatacc ... tgcttcccagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgcttctgattaggaaaatgtatgcaccttaattgtaatctattgcttcccagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGTAAAGGCTTTGGTTTCGATGTTGATAACACCATTGGCAG
                                            ttgcttccc  CT-rich tract
                              ttaattgtaatctatt  TA-rich tract