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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAATGCGAAAAGCCCTGAGCAAGTCCTTGAAATGGTGAAAGCTATAGCTTCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcgtttctgcttatttctgaatgctttgctcatttatcacacttctcattttttttttgtcttaatctttgtgtag

Basic information

species Arabidopsis thaliana
transcript AT3G02200.1
intron # 3
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|86045215|gb|DR340970.1|DR340970
EST:     TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGA
genomic: TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGA
EST: gi|86045194|gb|DR340949.1|DR340949
EST:     TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGACCTCCCGTNTGCTCGATTTCGAGT
genomic: TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGATTTCAAGT
EST: gi|86045207|gb|DR340962.1|DR340962
EST:     TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGACCACCCGTAATGCTCGATTTCAAG
genomic: TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGACCACCCGTA-TGCTCGATTTCAAG
EST: gi|86045212|gb|DR340967.1|DR340967
EST:     TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATA
genomic: TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATA
EST: gi|86045196|gb|DR340951.1|DR340951
EST:     TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGATTTCAAGT
genomic: TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGATTTCAAGT
EST: gi|86045216|gb|DR340971.1|DR340971
EST:     TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGA
genomic: TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGA
EST: gi|86045213|gb|DR340968.1|DR340968
EST:     TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGATTTCAAGT
genomic: TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGATTTCAAGT
EST: gi|86045195|gb|DR340950.1|DR340950
EST:     TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGATTTCAAGT
genomic: TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGATTTCAAGT
EST: gi|164125214|gb|ES086012.1|ES086012
EST:     CGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGATTTCAAGT
genomic: CGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGATTTCAAGT
EST: gi|86045208|gb|DR340963.1|DR340963
EST:     TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGACC
genomic: TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGACC
EST: gi|86045204|gb|DR340959.1|DR340959
EST:     TC-AAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGATTTCAAGT
genomic: TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGATTTCAAGT
EST: gi|86045205|gb|DR340960.1|DR340960
EST:     CCAAGGTTGCTCAACAACCCAGTTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGACCCACCCGTATGCTCGATTTCAAG
genomic: CCAAGGTTGCTCAACAACCCAGT-GACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGACC-ACCCGTATGCTCGATTTCAAG
EST: gi|125176555|gb|EL195856.1|EL195856
EST:     CAAGGTTTGTCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGACCACCCGTA
genomic: CAAGG-TTG-CTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGACCACCCGTA
EST: gi|86045210|gb|DR340965.1|DR340965
EST:     TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGAT                         CCTCTTCAATCTCTATAACCTGGTTGACAACCCGTATGCTCGA
genomic: TCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcg ... ctttgtgtagCCTCTTCAATCTCTATAACCTGGTTGACCACCCGTATGCTCGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAATGCGAAAAGCCCTGAGCAAGTCCTTGAAATGGTGAAAGCTATAGCTTCCAAGGTTGCTCAACAACCCAGTGACAAAGCTTCACTTCGTTTGAAGATgtatgaatcgtttctgcttatttctgaatgctttgctcatttatcacacttctcattttttttttgtcttaatctttgtgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA