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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatacatgttccttgaagagtgaggaatatagttttatatgcaccatccatattgttccttgcactctactcgtgaccagtcgccatctcttattctgttcag

Basic information

species Zea mays
transcript GRMZM2G133082_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133082_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os05g34180.1 (Oryza sativa), 5'ss of exon 4
AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatacatg--ttccttgaagag-------tgaggaatatagtttta------tatgcaccatccatattgttccttgcact-ctactcgtgaccagtcgccatctcttattctgttcag
|||||||| ||||||||||||||||||||||||||||||||||| ||||||||||| ||||| ||||||||||| ||| | ||||| || ||  |   |||||  | ||  |   | || ||||  |       |||  || | ||   ||      | |||||  || ||  || ||    |  | |||      || ||| || |  |  ||||        
AGGTCTGCTACAAAAGTGACATTTCCACTTGTCTGGACAAACACTTGCTGTAGCCACCCTCTATACCGCGAGTCCGAGCTCATTGAAGATAAAAGCCTAGgtacatctatctacctgccctgaaatgagaactgtgaaaaacaaagccatacctatctttgcactgtctatgctgctctccaccttactaaataatacaagttgctacgttgtatttcag----

upper sequence: GRMZM2G133082_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA18G47770.1 (Glycine max), 5'ss of exon 4
AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatacatgttccttgaagagtgaggaatatagttttatatgcaccatccatattgttccttgcactctactcgtgaccagtcgccatctcttattctgttcag
 | |||||||| || || ||||| || ||||| |||||||||||||| || |||||||| || ||||| || || ||| | ||||| || |||      ||||| ||    ||| ||||  | | |     | | |  | |||     | ||| |  |||| | ||||    |  |  | ||   |  ||  | |||  | ||  |||
CGATCTGCAACCAAGGTAACATTCCCTCTTGTGTGGACAAACACCTGTTGCAGCCATCCACTGTACCGTGAATCTGAGCTTATTGATGAGAATGCCCTTGgtatatac-tgtgtaccttttatatttgttcaaacaactatat-----caatctactttgt-cattgctgctttttgtttact--ttccccccactttgtatgaccag

upper sequence: GRMZM2G133082_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA09G38550.1 (Glycine max), 5'ss of exon 4
AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatacatgttccttgaagagtgaggaatatagttttatatgcaccatccat-attgttccttgcactctactcgtgaccagtcgccatctcttattctgttcag
 | ||||||||||| || || || || ||||| |||||||||||||| |||||||||||||| ||||| || || ||| | ||||| || |||      ||||| ||    ||| ||||  | | |     | ||   | ||||       |   | |||| | |||    | || |  |  ||| |    ||  |             
CGATCTGCAACAAAGGTAACTTTCCCTCTTGTGTGGACAAACACCTGTTGTAGCCATCCTCTGTACCGTGAATCTGAGCTTATTGATGAGAATGCCCTTGgtatatac-tgtgtaccttctataattgttcaaatgactatataaatctactttgtcattgctgctttttatttattttttcccactttgtattaccag----------

upper sequence: GRMZM2G133082_T02 (Zea mays), 5'ss of exon 1
lower sequence: Vv04s0023g00600.t01 (Vitis vinifera), 5'ss of exon 4
AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatacatgttccttgaagagtgaggaatatagttttatatgcaccatccatattgttccttgcactctactcgtgaccagtcgccatctcttattctgttcag
|||||||| ||||| |||||||| ||  | || ||||||||||||||||| ||||||||||| ||||| || |||||| | ||||| || |||      |||||   | ||| || |||      |  |||||    || |   |    ||     | | ||| | |   | |  || |   || |  |||                 
AGGTCTGCCACAAAGGTGACATTCCCTTTGGTGTGGACAAACACCTGCTGCAGCCATCCTCTTTACCGTGAATCAGAGCTTATTGATGAGAATGCGCTTGgtat---tccat-tttctttcttcttttggaatgccattatgc-tttgtcactatgacttttcttagttgtttgttcat--tcactaaccag----------------

upper sequence: GRMZM2G133082_T02 (Zea mays), 5'ss of exon 1
lower sequence: PP1S28_399V6.1 (Physcomitrella patens), 5'ss of exon 4
AGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatacatgttccttgaagagtgaggaatatagtttta-tatgcaccatccatattgttccttgcact-ctactcgtgaccagtcgccatctcttattctgttcag
 | || || || |||||||| ||||||||||| ||||| ||||| || || |||||||| || ||||| ||||| ||  | |||||||| || |     |||  | || |       |     |    | |  |   | ||  | |  |      ||| |||   ||| ||| |||  | | || |  |   |||  |  |         
CGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGTTGCAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattctcaccattactcaaaattgtaccaccatattgctgtaaagtgcgtataatgtaggttgtactgctagacttcac-acacattatcgttagt---------

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|211304673|gb|FL135311.1|FL135311
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAGCGCAAACTATTT
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatac ... ttctgttcagGGGTGAGAAATGCAGCCCAGCGCAAACTATTT
EST: gi|67022742|gb|CO451491.1|CO451491
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatac ... ttctgttcagGGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
EST: gi|15312900|gb|BI478457.1|BI478457
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatac ... ttctgttcagGGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
EST: gi|154130380|gb|EC872179.2|EC872179
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatac ... ttctgttcagGGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
EST: gi|154130466|gb|EC872180.2|EC872180
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatac ... ttctgttcagGGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
EST: gi|32940743|gb|CF045562.1|CF045562
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatac ... ttctgttcagGGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
EST: gi|71303304|gb|DR787755.1|DR787755
EST:     AAATTGTGCAG                         GGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
genomic: AAATTGTGCAGgtatgtatac ... ttctgttcagGGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
EST: gi|21891394|gb|BQ744607.1|BQ744607
EST:     CTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCCCG                         GGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTG
genomic: CTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTG-CAGgtatgtatac ... ttctgttcagGGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTG
EST: gi|60354876|gb|DN221849.1|DN221849
EST:     TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAG                         GGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatac ... ttctgttcagGGGTGAGAAATGCAGCCCAGCGCAAACTATTTGATGAGCTGGGAATAGTGG
EST: gi|211304672|gb|FL135310.1|FL135310
EST:     GAGCCCTCCTCTCTACCGCGAGTCAAAGTTGATTGAGGAAAATGGGGCAG                         GGGTGAAAAATGCA
genomic: TAGCCATCCTCTCTACCGCGAGTCAGAGTTGATTGAGGAAAATTGTGCAGgtatgtatac ... ttctgttcagGGGTGAGAAATGCA