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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGGCGCAAGGTTGAGGATCCTGACATGTTAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCTgtatgtttcagattcttgtgtgtgttagttgttactctgcatctttattgctttacctatttttaactatttcattgaattcaactaacacatcagtcatgtcgtccttgtatag

Basic information

species Zea mays
transcript GRMZM2G066496_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G066496_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os12g05650.1 (Oryza sativa), 5'ss of exon 5
CGGGCGCAAGGTTGAGGATCCTGACATGTTAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCTgtatgtt-------tcagattcttgtg--tgtgtt---agttgttactctgcatctttattgctttacctatttttaactatttcattgaattcaactaacacatcagtcatgtcg-tccttgtatag
 |||||||| |||||||| |||||||  || |||| ||||||||||||  | || |||||||| || |||||||||||||||||||       ||| || ||| |   ||||||   |  |  |||  |   |  || | | |       | |||   |   |||  | ||  ||||||| |||  |||  || | |     | |||
GGGGCGCAAAGTTGAGGACCCTGACACATTGGAAAAGATACGGCTAACAGTTATTAACAACCTTCTGCAGTATCATCCTgtatgttccgagcgtcacatccttttacttgtgtttagaacttctaccgttagtaattttggatccgttcttgtttttatgaatcaaagtatcaaactaactcatttgtctggttgatatgcatgtag

upper sequence: GRMZM2G066496_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA20G24450.1 (Glycine max), 5'ss of exon 5
------CGGGCGCAAGGTTGAGGATCCTGACATGTTAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCTgta----tgtttcaga------ttcttgtgtgtgttagtt---gttactctgcatctttattgctttacctatttttaactatttcat-tgaattcaactaacacatcagtcatgtcgtccttgtatag------------------------------------------------------------
       || ||||| ||||| |||||||| |||||||| ||||| ||||| ||||| || ||||| ||| |  | ||||||||||||    ||||||| |      ||| | ||  | |  | |   |||||| |  || |     |||   | | |  |||||  |||  | | ||  ||| |    | |  || |  |  | |   ||||                                                             
AGACACTGGACGCAAAGTTGAAGATCCTGATATGTTAGAGAGGATTCGGCTTACCATTATTAACAATCTGTTGAAATATCATCCTgtaagtttgtttcatagataatttcctctggatttctgatatggttactttatatataagaagctcc-cttgtaattaacatttttttataaacacaatttttcctt--gttaccttttgcaaatatactttagtttgctcttaattttaagttttttcttactcacaaatattatataatttgtgtag

upper sequence: GRMZM2G066496_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv13s0147g00220.t01 (Vitis vinifera), 5'ss of exon 5
---CGGGCGCAAGGTTGAGGATCCTGACATGTTAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCTgtatgtttcagattcttgtg-tgtgttagttgttactctgcatctttattgctttacctatttttaact--atttcattgaattcaactaacacatcagtcatgtcgtccttg-tatag----------------------------------------
    || ||||| ||||| ||||||||||||||||| || || || || || ||||||||||||||  |  |||||||||| |||||| |  || |       |   ||   || |  | |  || ||||||  |   | || |  |   |  | |  |   |  |  ||   ||| |   | |  ||    |   | | |                                        
TGATGGACGCAAAGTTGAAGATCCTGACATGTTAGAGAGAATTCGACTTACAATCATCAACAACCTTTTGAAGTATCATCCAgtatgtatttgagttgaacactaatttcactgatgtttt--atttttatttttagtcttactggtggatgaaatggaagaatcttcaccctcactttctttacatctctttcactgttgcatttcttttttaagtatccctttttggcatcctttctag

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|32804124|gb|CD956360.1|CD956360
EST:     TAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCT                         GAATCAAGTGAGAAGTTGGCAATGGGTGAATTTTTTGGGATAAAACCTCCT
genomic: TAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCTgtatgtttca ... ccttgtatagGAATCAAGTGAGAAGTTGGCAATGGGTGAATTTTTTGGGATAAAACCTCCT
EST: gi|32801615|gb|CD953851.1|CD953851
EST:     TAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCT                         GAATCAAGTGAGAAGTTGGCAATGGGTGAATTTTTTGGGATAAAACCTCTT
genomic: TAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCTgtatgtttca ... ccttgtatagGAATCAAGTGAGAAGTTGGCAATGGGTGAATTTTTTGGGATAAAACCTCCT
EST: gi|118406764|gb|EH038212.1|EH038212
EST:     TAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCT                         GAATCAAGTGAGAAGTTGGCAATGGGTGAATTTTTTGGGATAAAACCTCCT
genomic: TAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCTgtatgtttca ... ccttgtatagGAATCAAGTGAGAAGTTGGCAATGGGTGAATTTTTTGGGATAAAACCTCCT
EST: gi|67022635|gb|CO451384.1|CO451384
EST:     TAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCT                         GAATCAAGTGAGAAGTTGGCAATGGGTGAATTTTTTGGGATAAAACCTCCT
genomic: TAGAAAGGATACGGCTAACCATCATCAACAACCTGCTCCAGTATCATCCTgtatgtttca ... ccttgtatagGAATCAAGTGAGAAGTTGGCAATGGGTGAATTTTTTGGGATAAAACCTCCT