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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAACTGAAGGGGTGACTGTTGCTGCTTACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaataccttttcttctgtaagattttttattgttgatacttggaattaattgccatactgttgaaagagccaaatgctttcatctgaaccaatgatgg...

Basic information

species Zea mays
transcript GRMZM2G126517_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126517_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os08g39420.1 (Oryza sativa), 5'ss of exon 7
GAAACTGAAGGGGTGACTGTTGCTGCTTACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaataccttttcttctgtaagattttttattgttgatacttggaattaattgccatactgttgaaagagccaaatgctttcatctgaaccaatgatgg-----
|||||| |||| || || ||||||||||||| ||||||||||||||| || ||||| |||||| | || |||||  ||||  |    ||| ||| ||||| || ||| ||     ||| ||    ||  ||    |  |||| || |||  |  | ||||  | | | |   ||         
GAAACTCAAGGAGTAACGGTTGCTGCTTACAAAACCAATGAATTTCCTGCTTTCTTTACAGAAGTCAGCGGATGTAAGgtagaataatttgcttatgtaaaatgttt-ataagctatatttaatttttgttttgtt--tgtttaaggag--attttcttttctgtaatctggtgtgaatctgt
















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|67038503|gb|CO464823.1|CO464823
EST:     ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAG                         GTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
genomic: ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaatacct ... cccaacatagGTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
EST: gi|149082843|gb|EE172069.2|EE172069
EST:     ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAG                         GTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
genomic: ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaatacct ... cccaacatagGTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
EST: gi|149015839|gb|EE045506.2|EE045506
EST:     ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAG                         GTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
genomic: ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaatacct ... cccaacatagGTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
EST: gi|31355893|gb|CD440250.1|CD440250
EST:     ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAG                         GTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
genomic: ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaatacct ... cccaacatagGTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
EST: gi|71764026|gb|DR961963.1|DR961963
EST:     AATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAG                         GTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
genomic: AATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaatacct ... cccaacatagGTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
EST: gi|88748923|gb|DY533064.1|DY533064
EST:     ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAG                         GTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
genomic: ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaatacct ... cccaacatagGTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
EST: gi|74236391|gb|DT644305.1|DT644305
EST:     ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAG                         GTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
genomic: ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaatacct ... cccaacatagGTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
EST: gi|74236392|gb|DT644306.1|DT644306
EST:     ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAG                         GTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCCAAATAATATATGC
genomic: ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaatacct ... cccaacatagGTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATATATGC
EST: gi|149082842|gb|EE172068.2|EE172068
EST:     CAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAG                         GTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
genomic: CAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaatacct ... cccaacatagGTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
EST: gi|31355559|gb|CD439916.1|CD439916
EST:     ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAG                         GTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
genomic: ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaatacct ... cccaacatagGTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
EST: gi|71764027|gb|DR961964.1|DR961964
EST:     ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAG                         GTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT
genomic: ACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaatacct ... cccaacatagGTGCCATGTCGTGTTGATTCTCCAGAAGAGTGTGCCAAAATAATAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAACTGAAGGGGTGACTGTTGCTGCTTACAGAACCAATGAATTTCCCGCGTTCTTCACAGAAATTAGTGGATGCCAGgttaataccttttcttctgtaagattttttattgttgatacttggaattaattgccatactgttgaaagagccaaatgctttcatctgaaccaatgatgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA