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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCGGCTTCCTCGTCACCGCCCCCCTCCTCGCCGTCCACTGGTGCCGAGCCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGGgtagggacctccacccctcacacctgatcgcctttgttctagctgttcattttgtaccgggggaccattttttgctttgactgcgggtgggcaataccat...

Basic information

species Zea mays
transcript GRMZM2G369912_T01
intron # 1
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|71307421|gb|DR789915.1|DR789915
EST:     CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGG                         GTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
genomic: CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGGgtagggacct ... aatcttgcagGTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
EST: gi|148949382|gb|EC894838.2|EC894838
EST:     CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGG                         GTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
genomic: CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGGgtagggacct ... aatcttgcagGTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
EST: gi|89247732|gb|DY619518.1|DY619518
EST:     CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGGGTTTGG                         GTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGGGGAATT
genomic: CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGGgtagggacct ... aatcttgcagGTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
EST: gi|211135523|gb|FL473207.1|FL473207
EST:     CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGG                         GTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
genomic: CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGGgtagggacct ... aatcttgcagGTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
EST: gi|211249121|gb|FL249376.1|FL249376
EST:     CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGG                         GTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
genomic: CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGGgtagggacct ... aatcttgcagGTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
EST: gi|149089423|gb|EE178663.2|EE178663
EST:     CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGG                         GTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
genomic: CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGGgtagggacct ... aatcttgcagGTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
EST: gi|211249124|gb|FL249379.1|FL249379
EST:     CGGCGCGGNGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGG                         GTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
genomic: CGGCGCGG-GTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGGgtagggacct ... aatcttgcagGTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
EST: gi|148965284|gb|EE016088.2|EE016088
EST:     CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGG                         GTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
genomic: CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGGgtagggacct ... aatcttgcagGTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
EST: gi|149020748|gb|EE045749.2|EE045749
EST:     CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGG                         GTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT
genomic: CCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGGgtagggacct ... aatcttgcagGTTGAAGCCGCTCGATTTGCTCACCAGAAATTCAGATTTTCGAGTGGAATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCGGCTTCCTCGTCACCGCCCCCCTCCTCGCCGTCCACTGGTGCCGAGCCGGCGCGGGTGGAGATCCGTTCGCTTTGGATCGACTTCTTCGTGTTTGGgtagggacctccacccctcacacctgatcgcctttgttctagctgttcattttgtaccgggggaccattttttgctttgactgcgggtgggcaataccat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccacccc