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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGATCTCTTAGGAATGGATAAAGGATATACGATTGATCATGAAGTAGAATGTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatactttttattttgctgttcatcttcgatattgaattccttcttggccttttgctgcaagttctgttagagatctatccagcttctaaatctttgtggataatgtatgagttctgcctttttttgtgtcctttgcatagtattatggtattaactctttgtttctggacctggtaaag

Basic information

species Zea mays
transcript GRMZM2G039359_T07
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G039359_T07 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os08g40200.1 (Oryza sativa), 5'ss of exon 3
CGATCTCTTAGGAATGGATAAAGGATATACGATTGATCATGAAGTAGAATGTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttttt-----attttgctgttcatcttcgatattgaattcc-ttcttgg--ccttttgctgca----agttctgttag---agatctatccagcttctaaatctttgtggataatgtatgagttctgcctttttttgtgtcctttgcatagtat-tatggtattaactctttgtttctggac-ctggtaaag
 ||||| ||||||||||| || |||||||| ||||| ||| | || |||||||| ||  |||| ||||| ||||||||||| || || |||||||| || || || || | |       ||| | ||||| |||  | ||    ||   || |||   | || | ||| |    | |||    ||   | |||||  || ||| |   | || | | ||    |   |   |    |  |||| ||     |  ||  ||| ||| || |    | |||| |  ||     ||||| ||
TGATCTTTTAGGAATGGACAATGGATATACAATTGACCATCATGTGGAATGTGGAAAGTTAATAACTCTTTTCAGTGCTCCAGATTATCCACAGTTCCAAgtaattctctgtcacatgattttccgttcaccttgaaaataatcttttattattgaaacattatactgtatatgaattccacaagtgaaaatctactcaactttt---ttttggggcattccatgctaaa-cgatttgattttatgattggttgatcatatctattgtttctcatatttgatattgtctattggtacag

upper sequence: GRMZM2G039359_T07 (Zea mays), 5'ss of exon 3
lower sequence: Vv04s0044g01770.t01 (Vitis vinifera), 5'ss of exon 3
CGATCTCTTAGGAATGGATAAAGGATATACGATTGATCATGAAGTAGAATGTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatactttttattttgctgttca-----tcttcgatattgaattccttc-ttggccttttgctgcaagttctgttagagatctatccagcttctaaatctttgtggataatgtatgagttctgcctttttttgtgtcctttgcatagtattatggtattaactctttgtttctggacctggtaaag
 | |||   ||||||| |  |||| || || || |||||||  ||||| |  || ||  |||||||||| || |||||||| ||||||||||| ||||||||  |  | ||  |  |||   |||     || | | |  |  |||   |  ||     |||  |  || |    || || |      ||||||  |||| ||                                                                                     
TGGTCTTGCAGGAATGAAGGAAGGGTACACTATAGATCATGTTGTAGAGTCAGGAAAGTTAATTACTCTGTTTAGTGCTCCAGACTACCCACAATTTCAGgtc-tgttcttcctcgtgcaactcagagtttccttgttcctatatttaatagttcttgcttttatataaatgtctttggaaacaatagcagctt--aaatatt-------------------------------------------------------------------------------------
















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|32926902|gb|CF031714.1|CF031714
EST:     GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAG                         GCTTCAGAGGAGCGATA
genomic: GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATA
EST: gi|32925093|gb|CF029905.1|CF029905
EST:     GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAG                         GCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
genomic: GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
EST: gi|32935243|gb|CF040055.1|CF040055
EST:     GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAG                         GCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
genomic: GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
EST: gi|32926929|gb|CF031741.1|CF031741
EST:     GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAG                         GCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGGCCTTAGTCCA
genomic: GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
EST: gi|113848140|gb|DW962931.1|DW962931
EST:     CACAGTTTCAG                         GCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
genomic: CACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
EST: gi|32926892|gb|CF031704.1|CF031704
EST:     GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGGTTCAG                         GCTTCAGAGGAGCGATACAACAATCGGGGAGCATATATTGGCCTTAGTCCA
genomic: GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
EST: gi|32926827|gb|CF031639.1|CF031639
EST:     GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAG                         GCTTCAGAGGAGCGATACAACAATCGTGGAGCATATAT
genomic: GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAATCGTGGAGCATATAT
EST: gi|32935224|gb|CF040036.1|CF040036
EST:     GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAG                         GCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
genomic: GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
EST: gi|32925644|gb|CF030456.1|CF030456
EST:     GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAG                         GCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
genomic: GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
EST: gi|32926141|gb|CF030953.1|CF030953
EST:     GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAG                         GCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
genomic: GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
EST: gi|113683145|gb|DW834015.1|DW834015
EST:     CACAGTTTCAG                         GCTTCAGAGGAGCGATACAACAATACGTGGAGCATATATTGTCCTTAGTCC
genomic: CACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAAT-CGTGGAGCATATATTGTCCTTAGTCC
EST: gi|211498889|gb|FL031325.1|FL031325
EST:     TGGGAAACTAATTTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAG                         GCTTCAGAGGAGCGATACAACAATCGTGGAGCATATAT
genomic: TGGGAAACTAATT-ACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAATCGTGGAGCATATAT
EST: gi|32926647|gb|CF031459.1|CF031459
EST:     GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAG                         GCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA
genomic: GTGGGAAACTAATTACTCTCTTCAGTGCTCCGGACTACCCACAGTTTCAGgtgatacttt ... cctggtaaagGCTTCAGAGGAGCGATACAACAATCGTGGAGCATATATTGTCCTTAGTCCA