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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCCTGTTTTAAAAAGAAGAATCGAGTAATCGGGTGGTTTTGAAGACGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAGgtatgtttttatctttgtctcctctgcttctgatctgttaatgccaatcgataattcctagttttgcgatgcaagcatgaatcgtcgattgttatctgag...

Basic information

species Arabidopsis thaliana
transcript AT4G14716.1
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|19878312|gb|AU239143.1|AU239143
EST:     AAGAAGGACGTAAGACATCACNGAGGAACACGATGGGTGAAGCGGTCAAG                         GATGGGAGAGAAGAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAG
genomic: AAGAAGGAC-TAAGACATCAC-GAGGAACACGATGGGTGAAGCGGTCAAGgtatgttttt ... ttttgcttagGATGGGAGAGAAGAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAG
EST: gi|124852479|gb|EH936916.1|EH936916
EST:     CGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAG                         GATGGGAGAGAAGAAGTGATTCAAGCTTGG
genomic: CGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAGgtatgttttt ... ttttgcttagGATGGGAGAGAAGAAGTGATTCAAGCTTGG
EST: gi|19874934|gb|AU235765.1|AU235765
EST:     CGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAG                         GATGGGAGAGAAGAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAG
genomic: CGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAGgtatgttttt ... ttttgcttagGATGGGAGAGAAGAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAG
EST: gi|124723740|gb|EH815142.1|EH815142
EST:     CGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAG                         GATGGGAGAGAAGAAGTGA
genomic: CGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAGgtatgttttt ... ttttgcttagGATGGGAGAGAAGAAGTGA
EST: gi|124741751|gb|EH832913.1|EH832913
EST:     CGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAG                         GATGGGAGAGAAGAAGTG
genomic: CGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAGgtatgttttt ... ttttgcttagGATGGGAGAGAAGAAGTG
EST: gi|152035832|gb|BP862940.2|BP862940
EST:     AAGAAGGACTAAGACATCACGAGGAACAGGATGGGTGAAGGGGTCAAG                         GATGGGAGAGAAGAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAG
genomic: AAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAGgtatgttttt ... ttttgcttagGATGGGAGAGAAGAAGTGATTCAAGCTTGGTATATGGATGATAGTGAAGAG
EST: gi|124985775|gb|EL058343.1|EL058343
EST:     CGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAG                         GATGGGAGAGAAGAA
genomic: CGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAGgtatgttttt ... ttttgcttagGATGGGAGAGAAGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCCTGTTTTAAAAAGAAGAATCGAGTAATCGGGTGGTTTTGAAGACGAAGAAGGACTAAGACATCACGAGGAACACGATGGGTGAAGCGGTCAAGgtatgtttttatctttgtctcctctgcttctgatctgttaatgccaatcgataattcctagttttgcgatgcaagcatgaatcgtcgattgttatctgag

- - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctctgct