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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACGGTGTTGGATGCGTGCCGGCGGATGGCGGCGAGGCGGGTCGACGCCGTGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAGgtgacctctcttctcttttcttaattttctggttcagtttgatggtcacgtgttcctgtgtgcttgtatagtgattgagagctgaggaaacgagtcagat...

Basic information

species Zea mays
transcript GRMZM2G126656_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126656_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os12g07190.1 (Oryza sativa), 5'ss of exon 2
GACGGTGTTGGATGCGTGCCGGCGGATGGCGGCGAGGCGGGTCGACGCCGTGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAGgtgacctctcttctcttttcttaattttctggttcagtttgatggtcacgtgttcctgtgtgcttgtatagtgattgagagctgaggaaacgagtcagat-
|||||||| ||| |||||| || |||||||||||||| ||||||||||||||||||||||||||   || || |||||||||||||| ||||| || |||||      | |||| |  |       | |   |   ||| ||   |      |||  |||||||| |||||    |||     || || |  ||   | | 
GACGGTGTCGGAGGCGTGCAGGAGGATGGCGGCGAGGAGGGTCGACGCCGTGCTGCTCACCGACGCGCAGGGCCTCCTCTCCGGCATCGTCACTGATAAGgtacaggattttctttgcttgccccctcccaatct-gttggaaatttggaatttctagtgtgcttttatagatgctgattttggaagatagaagatggttt
















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|71764856|gb|DR962793.1|DR962793
EST:     TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAG                         GATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
genomic: TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAGgtgacctctc ... tatggtgcagGATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
EST: gi|71304764|gb|DR788496.1|DR788496
EST:     TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAG                         GATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
genomic: TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAGgtgacctctc ... tatggtgcagGATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
EST: gi|211362912|gb|FL253415.1|FL253415
EST:     TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAG                         GATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
genomic: TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAGgtgacctctc ... tatggtgcagGATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
EST: gi|78078047|gb|DV506462.1|DV506462
EST:     TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAG                         GATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
genomic: TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAGgtgacctctc ... tatggtgcagGATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
EST: gi|78086694|gb|DV515087.1|DV515087
EST:     TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAG                         GATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
genomic: TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAGgtgacctctc ... tatggtgcagGATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
EST: gi|30704520|gb|CD058548.1|CD058548
EST:     TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAG                         GATATAGCTACAAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCAT
genomic: TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAGgtgacctctc ... tatggtgcagGATATAGCTAC-AAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCAT
EST: gi|71766059|gb|DR963996.1|DR963996
EST:     TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAG                         GATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
genomic: TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAGgtgacctctc ... tatggtgcagGATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
EST: gi|148949419|gb|EC894878.2|EC894878
EST:     TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAG                         GATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC
genomic: TGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAGgtgacctctc ... tatggtgcagGATATAGCTACAAGGGTGGTTGCTGAGGGGCTTAGGGTGGAGCAAACCATC

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACGGTGTTGGATGCGTGCCGGCGGATGGCGGCGAGGCGGGTCGACGCCGTGCTGCTCACCGACAACCAAGGGCTCCTCTCCGGCATAGTCACCGACAAGgtgacctctcttctcttttcttaattttctggttcagtttgatggtcacgtgttcctgtgtgcttgtatagtgattgagagctgaggaaacgagtcagat

- - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC