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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcatctttcgtgtgtagatgtttttgtttcaattcgaaacgattctgaattgactcaatttatgagcttttttggctgttcatttgattgggtttgtgaattcgatattgaaacagATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCTCATGTCTTCT

Basic information

species Arabidopsis thaliana
transcript AT1G21065.1
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|164235656|gb|ES215381.1|ES215381
EST:     CTTATTACTCCAAAG                         ATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATT
genomic: CTTATTACTCCAAAGgtttcatctt ... attgaaacagATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATT
EST: gi|86078659|gb|DR374416.1|DR374416
EST:     CCATCACGCTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAAAG                         ATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCT
genomic: CCATCACGCTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAAAGgtttcatctt ... attgaaacagATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCT
EST: gi|116377317|gb|EG419909.1|EG419909
EST:     CCATCACTCTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAAAG                         ATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCT
genomic: CCATCACGCTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAAAGgtttcatctt ... attgaaacagATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCT
EST: gi|125258152|gb|EL272237.1|EL272237
EST:     CCATCACGCTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAAAG                         ATATTGAAAGAAATAAGGGAAGACTTG
genomic: CCATCACGCTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAAAGgtttcatctt ... attgaaacagATATTGAAAGAAATAAGGGAAGACTTG
EST: gi|124950414|gb|EL025880.1|EL025880
EST:     CTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAGAG                         ATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCT
genomic: CTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAAAGgtttcatctt ... attgaaacagATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCT
EST: gi|86028440|gb|DR324193.1|DR324193
EST:     CCATCACGCTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAAAG                         ATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCT
genomic: CCATCACGCTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAAAGgtttcatctt ... attgaaacagATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCT
EST: gi|116422128|gb|EG464720.1|EG464720
EST:     CCATCACGCTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAAAG                         ATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCT
genomic: CCATCACGCTTCCACCGCTACGTCGTGGATGTCATCTTATTACTCCAAAGgtttcatctt ... attgaaacagATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgagcttttttggctgttcatttgattgggtttgtgaattcgatattgaaacagATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCTCATGTCTTCT
                    atttgat  putative branch site (score: 5)
                                           atattgaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttcatctttcgtgtgtagatgtttttgtttcaattcgaaacgattctgaattgactcaatttatgagcttttttggctgttcatttgattgggtttgtgaattcgatattgaaacagATATTGAAAGAAATAAGGGAAGACTTGTCAGATTTCAATTGTGGTCTTGCTCATGTCTTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA