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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgcgattttctttgcaaattctaggccttttttgcaggcgtaatggttaaatgatgaagccgtgcttcttgccagGCAGTTGAATCGAAGTGCTCAGTTAGGAACTGCGCCAAGTTGCCAACGTCGCTCGGTCCACCCCCTAGTTCCAGCATAGATGAGATTGGAGGATGGGGGA

Basic information

species Zea mays
transcript GRMZM2G103897_T01
intron # 3
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|148999290|gb|EE036220.2|EE036220
EST:     TCCCGTTCCCAGTTAGCAGCTTGCCAGACGTGTACACACAGTTCAGAAAG                         GCAGTTGAATCGAAGTGCTCAGTTAGGAACTGCGCCAAGTTGCCAACGTCG
genomic: TCCCGTTCCCAGTTAGCAGCTTGCCAGACGTGTACACACAGTTCAGAAAGgttgcgattt ... ttcttgccagGCAGTTGAATCGAAGTGCTCAGTTAGGAACTGCGCCAAGTTGCCAACGTCG
EST: gi|149098361|gb|EE184336.2|EE184336
EST:     TCCCGTTCCCAGTTAGCAGCTTGCCAGACGTGTACACACAGTTCAGAAAG                         GCAGTTGAATCGAAGTGCTCAGTTAGGAACTGCGCCAAGTTG
genomic: TCCCGTTCCCAGTTAGCAGCTTGCCAGACGTGTACACACAGTTCAGAAAGgttgcgattt ... ttcttgccagGCAGTTGAATCGAAGTGCTCAGTTAGGAACTGCGCCAAGTTG
EST: gi|76283831|gb|DV023399.1|DV023399
EST:     TCCCGTTCCCAGTTAGCAGCTTGCCAGACGTGTACACACAGTTCAGAAAG                         GCAGTTGAATCGAAGTGCTCAGTTAGGAACTGCGCCCAGTTGCCCACGTCG
genomic: TCCCGTTCCCAGTTAGCAGCTTGCCAGACGTGTACACACAGTTCAGAAAGgttgcgattt ... ttcttgccagGCAGTTGAATCGAAGTGCTCAGTTAGGAACTGCGCCAAGTTGCCAACGTCG
EST: gi|13150051|gb|BG320373.1|BG320373
EST:     TCCCGTTCCCAGTTAGCAGCTTGCCAGACGTGTACACACAGTTCAGAAAG                         GSAGTTGAATCGAAGTGCTCAGTTAGGAACTGCGCCAAGTTGCCAACGTCG
genomic: TCCCGTTCCCAGTTAGCAGCTTGCCAGACGTGTACACACAGTTCAGAAAGgttgcgattt ... ttcttgccagGCAGTTGAATCGAAGTGCTCAGTTAGGAACTGCGCCAAGTTGCCAACGTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaggccttttttgcaggcgtaatggttaaatgatgaagccgtgcttcttgccagGCAGTTGAATCGAAGTGCTCAGTTAGGAACTGCGCCAAGTTGCCAACGTCGCTCGGTCCACCCCCTAGTTCCAGCATAGATGAGATTGGAGGATGGGGGA
                                            cttcttgcc  CT-rich tract
                          ttaaatgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgcgattttctttgcaaattctaggccttttttgcaggcgtaatggttaaatgatgaagccgtgcttcttgccagGCAGTTGAATCGAAGTGCTCAGTTAGGAACTGCGCCAAGTTGCCAACGTCGCTCGGTCCACCCCCTAGTTCCAGCATAGATGAGATTGGAGGATGGGGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG