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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGTGGACCCCTCTCTGTAGTTGAATACAGTGAAATGGATGCAGCTATGACAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAATgtataattcctacacctgcctcccctcctatatactatataggcattaacaattgtgtatttcttttatgtcatag

Basic information

species Zea mays
transcript GRMZM2G155729_T03
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G155729_T01 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os08g10600.3 (Oryza sativa), 5'ss of exon 11
GGGTGGACCCCTCTCTGTAGTTGAATACAGTGAAATGGATGCAGCTATGACAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAATgtataattcctacacctgcct--cccctcc----tatatactatataggcattaacaattgtgt-atttcttttatgtcatag
|||||| || || ||||||||||| |||||||||||||||||||||||||| |||||||| ||||||   || || |||||||||||||| |||||||||||||   || |     | |||  |||||||    |  || || |||| |  || | |||  | | | |   ||| |||||   
GGGTGGGCCTCTTTCTGTAGTTGAGTACAGTGAAATGGATGCAGCTATGACTACTGAAATAAATCAAGGCACAGGGCGCCTTCGTTATTGTTGGAGCAATgtatgtctcttcttattccctttcccctccactgtccatcctttataagtgttgataatcattttactatctttctgtcag--
















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|32789277|gb|CD941513.1|CD941513
EST:     CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAAT                         ATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGT
genomic: CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAATgtataattcc ... tatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGT
EST: gi|74243750|gb|DT651664.1|DT651664
EST:     CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAAT                         ATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCCAGTGACAAACAG
genomic: CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAATgtataattcc ... tatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAG
EST: gi|40303703|gb|CK348090.1|CK348090
EST:     CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAAT                         ATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGT
genomic: CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAATgtataattcc ... tatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGTGGACCCCTCTCTGTAGTTGAATACAGTGAAATGGATGCAGCTATGACAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAATgtataattcctacacctgcctcccctcctatatactatataggcattaacaattgtgtatttcttttatgtcatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA