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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCCATGGCGACCACCACCTCTTCCTCCTCGCTGACCACTCCTCTCCTCCGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcctctcccttcgcctttctcttcccgccatctctgccgtcccctaactttctttccgcgtcttgcag

Basic information

species Zea mays
transcript GRMZM2G121456_T03
intron # 1
splice site 5'
intron type U2

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|110519563|gb|EE023896.1|EE023896
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCACATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|149081623|gb|EE170768.2|EE170768
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|211481382|gb|FL023994.1|FL023994
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGA-GTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|78092088|gb|DV520462.1|DV520462
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|211481381|gb|FL023993.1|FL023993
EST:     CGCCCGAACTCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACNGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|19821991|gb|BQ048015.1|BQ048015
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|71436538|gb|DR817588.1|DR817588
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|101401421|gb|EB822388.1|EB822388
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAAGAGGTGCGCTCGTGCCGTAACTACCGCC
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCC
EST: gi|148939986|gb|EC884717.2|EC884717
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|61119391|gb|DN560352.1|DN560352
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|211478511|gb|FL023987.1|FL023987
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|32913968|gb|CF018780.1|CF018780
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|149088221|gb|EE177331.2|EE177331
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|101399114|gb|EB821430.1|EB821430
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|78111070|gb|DV529467.1|DV529467
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|76919121|gb|DV167599.1|DV167599
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|71427481|gb|DR808531.1|DR808531
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|71445134|gb|DR826184.1|DR826184
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|74245787|gb|DT653701.1|DT653701
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|78090189|gb|DV518563.1|DV518563
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|148938546|gb|EC882867.2|EC882867
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|19822147|gb|BQ048171.1|BQ048171
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|50338176|gb|CO533302.1|CO533302
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|101400189|gb|EB821914.1|EB821914
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|93282145|gb|EB674409.1|EB674409
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|76012850|gb|DT940020.1|DT940020
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|86472628|gb|DY238998.1|DY238998
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTACCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|211478510|gb|FL023986.1|FL023986
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|93282646|gb|EB674910.1|EB674910
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|148934818|gb|EC878864.2|EC878864
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|101399344|gb|EB821545.1|EB821545
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|71307773|gb|DR790105.1|DR790105
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|211478514|gb|FL023990.1|FL023990
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|26455779|gb|CA827362.1|CA827362
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATCCATGGCGACCACCACCTCTTCCTCCTCGCTGACCACTCCTCTCCTCCGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcctctcccttcgcctttctcttcccgccatctctgccgtcccctaactttctttccgcgtcttgcag

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