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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataatctcccacgttcttccaccacgcgttcgcccttggttattaccatttggcgtgaacagccggtgacgaaatctgtgcgaactaaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGCACAGCTTAGCCCAGTCTTGAGGAAGATCGACGACCGATTCATTTGCATG

Basic information

species Zea mays
transcript GRMZM2G152447_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152447_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g02750.1 (Oryza sativa), 3'ss of exon 2
gtataatctcccacgttcttccaccacgcgttcgcccttggttattaccatttggcgtgaacagccggtgacgaaatctgtgcgaactaaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGCACAGCTTAGCCCAGTCTTGAGGAAGATCGACGACCGATTCATTTGCATG--------------
   ||||     |   |  || |     |  | |      || | || ||||  |  |  | |    | || | |    || | |||||| |  |     |    ||||||||||| ||||| ||||| |||||||| |||| ||| |||||| ||  |||||   ||||||||||||||  | | ||||| ||||||              
--ttaataaaggagaatggtcgaatgtcccgttgaaa--agtcaatatcattatgtatttaaaa--agggatgga----gtactaactaaag--gttatcaattgttttcagTTCTTGGAAACCATGACTACAGGGGAAATGTGCTAGCACAGATTGACCCAGCTCTGAGGAAGATCGACAGCAGGTTCATCTGCATGAGATCCTTCATTGT
















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|78088303|gb|DV516696.1|DV516696
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAG                         -T-TC--T----AG-----G-AAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
EST: gi|149107456|gb|EE189334.2|EE189334
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCAT-G------G                         -TA---C---TCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
EST: gi|78110600|gb|DV529008.1|DV529008
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAG                         -T-TC--T----AG-----G-AAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
EST: gi|91055272|gb|EB165690.1|EB165690
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAG                         -T-TC--T----AG-----G-AAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
EST: gi|91876187|gb|EB406144.1|EB406144
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAG                         CTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
EST: gi|78109969|gb|DV528384.1|DV528384
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCAT-G------G                         -TA---C---TCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
EST: gi|148986503|gb|EE030253.2|EE030253
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAG                         -T-TC--T----AG-----G-AAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
EST: gi|76288593|gb|DV028161.1|DV028161
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTCACAGAAGCCAT-G------G                         -TA---C---TCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
EST: gi|91872645|gb|EB402602.1|EB402602
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAG                         -T-TC--T----AG-----G-AAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
EST: gi|91054359|gb|EB164777.1|EB164777
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAG                         -T-TC--T----AG-----G-AAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
EST: gi|78110599|gb|DV529007.1|DV529007
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCAT-G------G                         -TA---C---TCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC
EST: gi|71312265|gb|DR792656.1|DR792656
EST:     GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAG                         -T-TC--T----AG-----G-AAATCATGATTACAGGGGCAATGCGCTCGC
genomic: GTTCGTGGATATCTACACAGCTCAAAGCTTACAGAAGCCATGGTACTCAGgtataatctc ... aaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataatctcccacgttcttccaccacgcgttcgcccttggttattaccatttggcgtgaacagccggtgacgaaatctgtgcgaactaaggctgcagCTATCCCTTTTCAGTTCTAGGAAATCATGATTACAGGGGCAATGCGCTCGCACAGCTTAGCCCAGTCTTGAGGAAGATCGACGACCGATTCATTTGCATG

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