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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattctgggtccgccactgtgcatttgacatgctttgccttcactctggtgtctggtgctcgaatctgatattccattttttttgttctttggtgtatagTACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGACTTGGACGAGCCGCTCGATGCGGCTGTAACTGCGGAGAAGGGCAAGGCGG

Basic information

species Zea mays
transcript GRMZM2G005308_T02
intron # 1
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|211258260|gb|FL355084.1|FL355084
EST:     TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACG                         TACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
genomic: TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACGgtaatccttg ... tggtgtatagTACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
EST: gi|211395964|gb|FL308692.1|FL308692
EST:     TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACG                         TACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
genomic: TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACGgtaatccttg ... tggtgtatagTACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
EST: gi|78108727|gb|DV527145.1|DV527145
EST:     ACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCCGAGGACG                         TACGTGTCCGCCGTCTGTTTCCCCCTCCCCGTGTGATACTGTGATGGTGG
genomic: ACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCC-GAGGACGgtaatccttg ... tggtgtatagTACGTGTCCGCCGTCTGTTTCCAC-TCACCGTGTGATACTGTGATGGTGG
EST: gi|71764579|gb|DR962516.1|DR962516
EST:     TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACG                         TACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
genomic: TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACGgtaatccttg ... tggtgtatagTACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
EST: gi|71447263|gb|DR828313.1|DR828313
EST:     TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACG                         TACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
genomic: TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACGgtaatccttg ... tggtgtatagTACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
EST: gi|211090794|gb|FL312049.1|FL312049
EST:     TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACG                         TACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
genomic: TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACGgtaatccttg ... tggtgtatagTACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
EST: gi|211354764|gb|FL350598.1|FL350598
EST:     TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACG                         TACGTTGTC-GCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGGGGG
genomic: TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACGgtaatccttg ... tggtgtatagTACGT-GTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGG-
EST: gi|31355321|gb|CD439678.1|CD439678
EST:     TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACG                         TACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
genomic: TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACGgtaatccttg ... tggtgtatagTACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
EST: gi|211044278|gb|FL354496.1|FL354496
EST:     TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACG                         TACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC
genomic: TACCGCCCAATCTTTCCCCTTCCCGGACTGCTCGCTGGACGCCGAGGACGgtaatccttg ... tggtgtatagTACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggtgtctggtgctcgaatctgatattccattttttttgttctttggtgtatagTACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGACTTGGACGAGCCGCTCGATGCGGCTGTAACTGCGGAGAAGGGCAAGGCGG
                  atctgat  putative branch site (score: 4)
                        tattccattttttttg  CT-rich tract
                       atattccatttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattctgggtccgccactgtgcatttgacatgctttgccttcactctggtgtctggtgctcgaatctgatattccattttttttgttctttggtgtatagTACGTGTCCGCCGTCTGTTTCCACTCACCGTGTGATACTGTGATGGTGGACTTGGACGAGCCGCTCGATGCGGCTGTAACTGCGGAGAAGGGCAAGGCGG

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