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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGGACCTCCAGGGACTGGGAAAACATTGATGGCTCGTGCCTGTGCAGCACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaatttatttatagtctaagcatgactaatgattctactattacatgtttgtatcaactaattatatcattattacatgttcgtaacattttcc...

Basic information

species Glycine max
transcript GLYMA20G38030.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os06g07630.1 (Oryza sativa), 5'ss of exon 5
GTATGGACCTCCAGGGACTGGGAAAACATTGATGGCTCGTGCCTGTGCAGCACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaatttatttatagtctaagcatgactaatgattctactattacatgtttgtatcaactaattatatcattattacatgttcgtaacattttcc----
||||||||| || || |||||||| ||||||||||||||||| ||||| |||||||||||||| || || |||||||| ||||| || ||| | |||||||||  |  ||||||||  |   |||  |   | | ||||| |  | ||   | ||| |    || |  |  ||  |||||   ||||| |              
GTATGGACCACCTGGAACTGGGAAGACATTGATGGCTCGTGCATGTGCTGCACAGACAAATGCGACGTTCCTGAAATTAGCTGGTCCACAATTAGTCCAGgta--attatttatttcaa--ttaaaaagctccattgattatcatcttttttttttcttgtgaccatgttgatatttatttggtgttcatggggaggcaatagt

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G027282_T01 (Zea mays), 5'ss of exon 5
GTATGGACCTCCAGGGACTGGGAAAACATTGATGGCTCGTGCCTGTGCAGCACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaatttatttatagtctaagcatgactaatgattctactattacatgtttgtatcaactaattatatcattattacatgttcgtaacattttcc-
||||||||| || ||||||||||||||  | ||||||||||| || || |||||||||||||| || ||||||||||||||||| || ||||| ||||||||| |  | |  ||   |    ||      ||  ||| |     |  ||    | |  | | |   |||  | |||| ||||||  |  |     ||| | 
GTATGGACCCCCTGGGACTGGGAAAACGCTCATGGCTCGTGCATGCGCTGCACAGACAAATGCAACATTTCTGAAATTGGCTGGTCCACAACTTGTCCAGgtaggtaattaaatccgtgaaatatattatacagatgctagggttcctaaggctctccaactaaccatttgagcatt-ttacattctgtttgtgatttgcg

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G173849_T01 (Zea mays), 5'ss of exon 1
GTATGGACCTCCAGGGACTGGGAAAACATTGATGGCTCGTGCCTGTGCAGCACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaatttatttatagtctaagcatgactaatgattctactattacatgtttgt-atcaactaattatatcattattacatgttcgtaacattttcc-----
||||||||| ||||| ||||| || ||| | ||||||||||| ||||| |||||||| ||||| || ||||||||||| ||||| || ||||| || || |||   || |||| ||      ||||| | | |     |||   | |||  |||  || ||  |          |||   | |  | |  ||| || ||       
GTATGGACCGCCAGGAACTGGCAAGACACTCATGGCTCGTGCATGTGCTGCACAGACGAATGCAACATTTCTGAAATTAGCTGGTCCACAACTTGTGCAAgta-atcagtttacttgagaattaagctttatt-----ttccttttttatgtgtccgttatatagctgcgcctgcatgccttctcgatgataagatattttttttc

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 5
GTATGGACCTCCAGGGACTGGGAAAACATTGATGGCTCGTGCCTGTGCAGCACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaatttattt-atagtctaagcatgactaatgattctactattacatgtttgtatcaactaat-tatatcattattacatgttcgtaacattttcc
||| ||||| ||||| ||||| || ||| | ||||||||||| ||||| |||||||| ||||| || ||||| ||||| ||||| || ||||| || ||||||   || |||| || | |      |  |   |  | ||     | ||| ||   | |         | ||| | || || | || |   |     | |  
GTACGGACCACCAGGAACTGGCAAGACACTCATGGCTCGTGCATGTGCTGCACAGACGAATGCAACGTTTCTTAAATTAGCTGGTCCACAACTTGTGCAGgta-atcagtttacttgagaagtgttgttttcttttttatgtgtttgttatatagctttgcaggtgcgtctatttgatgataaaatatattttttcctctg-

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 5
lower sequence: AT3G05530.1 (Arabidopsis thaliana), 5'ss of exon 5
GTATGGACCTCCAGGGACTGGGAAAACATTGATGGCTCGTGCCTGTGCAGCACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaatttatttata---gtctaagcatgactaat-gattctactattacatgtttgtatc---------aactaattatatcattattacatgttcgtaacattttcc-----------------------------------------------------------------
|||||| || ||||||||||| ||||| || |||||||||||||| ||||||||||| |||||||| || || |||||||| ||||||||| ||||||||||||    || ||| ||||    | ||   |||| ||   ||||| | | | |  | || | |             ||   ||||  ||| |    |  | | |||| |                                                                     
GTATGGTCCCCCAGGGACTGGTAAAACTTTAATGGCTCGTGCCTGCGCAGCACAGACCAATGCCACCTTCCTTAAATTGGCAGGCCCTCAATTGGTCCAGgtatatatatatatatatatatatatatatatgagtatcagattcaattctcatctcttagaactctttaccctgtctggatataagattttagtgttctggcaacaataattacatgtgacgagctataatgatacttgattgtaatgacatgatgacatatccaatttatatacag

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 5
lower sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 5
GTATGGACCTCCAGGGACTGGGAAAACATTGATGGCTCGTGCCTGTGCAGCACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaatttatttatagtctaagcatgactaatgattctactattacatgtttgtatc--aactaattatatcattatt-acatgttcgtaacattttcc
|||||| ||||| || || || || || |||||||| || || |||||||||||||||||||| ||||| || ||| | || || || ||||| || ||||||||| || |    || |   |||       | ||  |  | || | | || |||  | |  |||  |   || | || || | |  |  |||         
GTATGGTCCTCCTGGAACCGGAAAGACGTTGATGGCCCGAGCTTGTGCAGCACAGACAAATGCAACTTTCCTCAAACTAGCAGGGCCACAACTTGTTCAGgtatgaaaactagagta-aacgtaactgattttgatcttgttcctgtgatattttttgaaccaaacggaaagtaactttttttagacttatgtatag------

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 5'ss of exon 5
GTATGGACCTCCAGGGACTGGGAAAACATTGATGGCTCGTGCCTGTGCAGCACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaatttatttatagtctaagcatgactaatgattctactattacatgtttgtatcaactaattatatcattattacatgttcgtaacattttcc----
|||||||||||||||||||||||||||  ||||||| ||||| || || || || ||||||||||||||||||||  |||| ||||||||||| ||||||||  || | | |   | |  | |   | |   | ||  || |  | |||  || |    || |   ||| |    || ||   | | |  || ||| |      
GTATGGACCTCCAGGGACTGGGAAAACTCTGATGGCCCGTGCATGCGCGGCTCAAACAAATGCCACTTTTCTGAAGCTGGCAGGCCCTCAACTTGTCCAGgtgggatattcttcatttgtttt---ccttcttcattcttat-ttgttatttgatgccttctagggattcttgacttgttcagtatcctgaaaattctgaggtt

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|298189083|gb|HO037486.1|HO037486
EST:     CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAG                         ATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAACTAGCA
genomic: CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaat ... ttttgtacagATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAACTAGCA
EST: gi|208108713|gb|GD907145.1|GD907145
EST:     CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAG                         ATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAA
genomic: CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaat ... ttttgtacagATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAA
EST: gi|193427383|gb|FK394837.1|FK394837
EST:     CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAG                         ATGTTCATTGGAGATGG
genomic: CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaat ... ttttgtacagATGTTCATTGGAGATGG
EST: gi|7233106|gb|AW568456.1|AW568456
EST:     CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAG                         ATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAACTAGCA
genomic: CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaat ... ttttgtacagATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAACTAGCA
EST: gi|192327046|gb|FK015213.1|FK015213
EST:     CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAG                         ATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAACTAGCA
genomic: CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaat ... ttttgtacagATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAACTAGCA
EST: gi|192317514|gb|FK008966.1|FK008966
EST:     CCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAG                         ATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAACTAGCA
genomic: CCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaat ... ttttgtacagATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAACTAGCA
EST: gi|208084369|gb|GD882317.1|GD882317
EST:     CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAG                         ATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTC
genomic: CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaat ... ttttgtacagATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTC
EST: gi|298174321|gb|HO017657.1|HO017657
EST:     CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAG                         ATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAACTAGCA
genomic: CACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaat ... ttttgtacagATGTTCATTGGAGATGGAGCAAAACTTGTTCGTGACGCCTTTCAACTAGCA