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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAGTAGCCATGGCGATGATGGCGTTGGCTATTGGGTCCGATCAGATATCTACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAAgtacgttgagctagatctttgtgctatgcagggaagaaaaaggttgtttccgactgacgtctctaaaaacgtgtatgtatgttcattctaatggtgcag

Basic information

species Zea mays
transcript GRMZM2G005849_T02
intron # 8
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|211507109|gb|FK960923.1|FK960923
EST:     TACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAA                         GCAATGTCAGCGAAGTTCTCAAGCTAGATG
genomic: TACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAAgtacgttgag ... aatggtgcagGCAATGTCAGCGAAGTTCTCAAGCTAGATG
EST: gi|211509468|gb|FK960933.1|FK960933
EST:     TACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAA                         GCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTTGCCT
genomic: TACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAAgtacgttgag ... aatggtgcagGCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTTGCCT
EST: gi|116819317|gb|EC862427.1|EC862427
EST:     TACTCAAGCTAGGAGGGACAGTATCATTAGTGGACTGAACAACCTTTCAA                         GCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTCGCCT
genomic: TACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAAgtacgttgag ... aatggtgcagGCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTTGCCT
EST: gi|211507116|gb|FK960930.1|FK960930
EST:     TACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAA                         GCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTTGCCT
genomic: TACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAAgtacgttgag ... aatggtgcagGCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTTGCCT
EST: gi|211507111|gb|FK960925.1|FK960925
EST:     TACTCAAGCTAGGAGGGACAGTATCATTAGTGGACTGAACAACCTTTCAA                         GCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTCGCCT
genomic: TACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAAgtacgttgag ... aatggtgcagGCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTTGCCT
EST: gi|148955139|gb|EC900656.2|EC900656
EST:     TACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAA                         GCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTTGCCT
genomic: TACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAAgtacgttgag ... aatggtgcagGCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTTGCCT
EST: gi|47962136|gb|CN844845.1|CN844845
EST:     TACTCAAGCTAGGAGGGACAGTATCATTAGTGGACTGAACAACCTTTCAA                         GCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTCGCCT
genomic: TACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAAgtacgttgag ... aatggtgcagGCAATGTCAGCGAAGTTCTCAAGCTAGATGCTGGAATGAAGGAGCTTGCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAGTAGCCATGGCGATGATGGCGTTGGCTATTGGGTCCGATCAGATATCTACTCAAGCTAGGAGGGACAGTATCATCAGTGGACTGAACAACCTTTCAAgtacgttgagctagatctttgtgctatgcagggaagaaaaaggttgtttccgactgacgtctctaaaaacgtgtatgtatgttcattctaatggtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA