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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACGTGAACGAGGCTCTCGAGGTGGTCCGTTTTGACATCCAGTACTGCGACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagttcagttcagtttcagcgctgaatgctaattattatatgttcagtcatcgatgtagtgagggaactgaactgacagcgcgtgtgccatgctgcaaccgaaatgcag

Basic information

species Zea mays
transcript GRMZM2G038487_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G038487_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g41760.1 (Oryza sativa), 5'ss of exon 2
GGACGTGAACGAGGCTCTCGAGGTGGTCCGTTTTGACATCCAGTACTGCGACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagttcagttcagtttcagcgctga--atgctaattattatatgttcagtcatcgatgtagtgagggaactga-actgacagcgcgtgtgccatgctgcaaccgaaatgcag
||| || ||| |||| || ||||||||||| || | ||||||||||||||| |||||||||||||| || || ||||||||||||||||| ||||||||||||   ||    |||  |  |  |    ||   ||||  |   ||  |  |  |       | |   ||       |||  |  | |       | |||   |               
GGATGTTAACCAGGCCCTTGAGGTGGTCCGATTCGGCATCCAGTACTGCGATTGGAGGGCGCGGCAGGACCTCCTCACCATCATGGTTCTGCACAACAAGgtatgaaa---tagtatatatgaaatattggccatgcagaaagtttcagatgaaaggtctcagggcctgttcactttgatgccaaaaaaaaccttaccaaatt---------------

upper sequence: GRMZM2G038487_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g41780.1 (Oryza sativa), 5'ss of exon 2
GGACGTGAACGAGGCTCTCGAGGTGGTCCGTTTTGACATCCAGTACTGCGACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagttcagttcagtttca-gcgctga----atgctaattattatatgttcagtcatcgatgtagtgagggaactgaact--gacagcgcg-tgtgccatgct-gcaaccgaaatgcag--------------------------------------------------
||| || ||| | ||||| ||||||||||| || || |||||||| ||||| |||||||||||||| || || ||||||||||||||||| ||||||||||||   |   |  |   |||  || |  | ||    | |  ||   ||  ||  || |   |  |   |    ||||    || |  ||| ||    ||    ||||| |     ||| |   |                                                  
GGATGTCAACCAAGCTCTTGAGGTGGTCCGGTTCGATATCCAGTATTGCGATTGGAGGGCGCGGCAGGACCTCCTCACCATCATGGTTCTTCACAACAAGgtaggaagcattggacaagtcacaagttcagagaagaggtcaaagctttcatagtctgaattttacagatcatgggattcaaaattggactgcatactgaataatgcttgaggttgaagtttcggatgactgacataggttaacttaaatgaatttttgaacattgaaatgcag
















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|74238024|gb|DT645938.1|DT645938
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|78104299|gb|DV522717.1|DV522717
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|211144702|gb|FL413099.1|FL413099
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|93012412|gb|EB637932.1|EB637932
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|211477142|gb|FL427782.1|FL427782
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTC
EST: gi|211151550|gb|FL386542.1|FL386542
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|148963856|gb|EE014962.2|EE014962
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|211323397|gb|FL381741.1|FL381741
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|33467307|gb|CF244356.1|CF244356
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|37421692|gb|CF648547.1|CF648547
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCT
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCT
EST: gi|91055890|gb|EB166308.1|EB166308
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|211386924|gb|FL369297.1|FL369297
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|71768332|gb|DR966269.1|DR966269
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|211006759|gb|FL429448.1|FL429448
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGG
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGG
EST: gi|211454292|gb|FL396775.1|FL396775
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCA
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCA
EST: gi|78113363|gb|DV531755.1|DV531755
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|29544884|gb|CB605492.1|CB605492
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|211076904|gb|FL402121.1|FL402121
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|211347947|gb|FL254258.1|FL254258
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|211116917|gb|FL407739.1|FL407739
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGGTCTCCACAACAGG                         GTGGTAGAGGTCCTCCAGCCCCTAGCGAGGGAGTTCAAGTCGATCGGGGAC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGG-AC
EST: gi|211279400|gb|FL429235.1|FL429235
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|211228027|gb|FL407502.1|FL407502
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|211048371|gb|FL399856.1|FL399856
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCCTAGCGAGGGAGTTCAAGTCGATCGGGACC
EST: gi|148961499|gb|EE012250.2|EE012250
EST:     ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAG                         GTGGTAGAGGTCCTCAACCCCCCTAGCGAGGGAGTTCAAGTCGATCGGGAC
genomic: ACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagt ... cgaaatgcagGTGGTAGAGGTCCTCAACCCCC-TAGCGAGGGAGTTCAAGTCGATCGGGAC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACGTGAACGAGGCTCTCGAGGTGGTCCGTTTTGACATCCAGTACTGCGACTGGAGGGCGCGGCATGATCTTCTCACCATCATGGTTCTCCACAACAAGgtactcaagttcagttcagtttcagcgctgaatgctaattattatatgttcagtcatcgatgtagtgagggaactgaactgacagcgcgtgtgccatgctgcaaccgaaatgcag

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