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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagtatgttgagaaggccaactaaatggggccctattttagttagaagacgctatctagttagaagacactattattgaagtgtattttggctgtctcagGACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTGCCTGGAACTTTTTCTGAAGAG

Basic information

species Zea mays
transcript GRMZM2G472991_T04
intron # 13
splice site 3'
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|78112923|gb|DV531317.1|DV531317
EST:     ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAG                         GACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
genomic: ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAGgtacgtctgc ... gctgtctcagGACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
EST: gi|78077807|gb|DV506236.1|DV506236
EST:     ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAG                         GACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
genomic: ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAGgtacgtctgc ... gctgtctcagGACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
EST: gi|60337135|gb|DN204108.1|DN204108
EST:     ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAG                         GATGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
genomic: ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAGgtacgtctgc ... gctgtctcagGACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
EST: gi|78120951|gb|DV539335.1|DV539335
EST:     ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAG                         GACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
genomic: ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAGgtacgtctgc ... gctgtctcagGACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
EST: gi|91056419|gb|EB166837.1|EB166837
EST:     ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAG                         GACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
genomic: ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAGgtacgtctgc ... gctgtctcagGACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
EST: gi|74246122|gb|DT654036.1|DT654036
EST:     ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAG                         GACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
genomic: ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAGgtacgtctgc ... gctgtctcagGACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
EST: gi|78077806|gb|DV506235.1|DV506235
EST:     ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAG                         GACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG
genomic: ATGACAAGGTTGGTGATGCTGTGTCTTTGGTTTCCTTGAAGATAGACCAGgtacgtctgc ... gctgtctcagGACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagacgctatctagttagaagacactattattgaagtgtattttggctgtctcagGACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTGCCTGGAACTTTTTCTGAAGAG
                                              ctgtctc  CT-rich tract
                         tattattgaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagtatgttgagaaggccaactaaatggggccctattttagttagaagacgctatctagttagaagacactattattgaagtgtattttggctgtctcagGACGATTCTGCTGAGCCTGATTGTAATCTTGCCTCAAGGGATTCAGATGTGCCTGGAACTTTTTCTGAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - atgttga
- - - - - - - - -caactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtattt