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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccctactcttcctcatatatggttatgctaatgcagtcaacatgattttgtgatgtatctcttaatcgacctttcattgtctcttgatttacagAACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCAAGGCGTGGATATTAAAGCTGAGATCTAGCTGTGCCCTCTCTCTCTCCCT

Basic information

species Arabidopsis thaliana
transcript AT4G24770.1
intron # 3
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|124981837|gb|EL054682.1|EL054682
EST:     TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAG                         AACTTGGAGGGTAGAGCAATCAGAGTGAATGTA
genomic: TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAGgtaccctact ... tgatttacagAACTTGGAGGGTAGAGCAATCAGAGTGAATGTA
EST: gi|116444163|gb|EG486755.1|EG486755
EST:     TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAG                         AACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA
genomic: TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAGgtaccctact ... tgatttacagAACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA
EST: gi|124828666|gb|EH913502.1|EH913502
EST:     TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAG                         AACTTGGAGGGTAGAGCAATCA
genomic: TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAGgtaccctact ... tgatttacagAACTTGGAGGGTAGAGCAATCA
EST: gi|125262348|gb|EL276433.1|EL276433
EST:     TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAG                         AACTTGGAGGGTAGAGCAATCAGAGTGAA
genomic: TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAGgtaccctact ... tgatttacagAACTTGGAGGGTAGAGCAATCAGAGTGAA
EST: gi|125083225|gb|EL143877.1|EL143877
EST:     TGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAG                         AACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA
genomic: TGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAGgtaccctact ... tgatttacagAACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA
EST: gi|124921982|gb|EL000316.1|EL000316
EST:     ACGAAGCCATCTCTGCCCTCGATGGACAG                         AACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA
genomic: ACGAAGCCATCTCTGCCCTCGATGGACAGgtaccctact ... tgatttacagAACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA
EST: gi|116402359|gb|EG444951.1|EG444951
EST:     TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAG                         AACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA
genomic: TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAGgtaccctact ... tgatttacagAACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA
EST: gi|86087405|gb|DR383164.1|DR383164
EST:     TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAG                         AACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA
genomic: TGTCTGACGTGGATGAACTCAACGAAGCCATCTCTGCCCTCGATGGACAGgtaccctact ... tgatttacagAACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA
EST: gi|116402361|gb|EG444953.1|EG444953
EST:     GTCTGACGTGGATGAACTCAACGAAGCCATTCTCTGCCCTCGATGGACAG                         AACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA
genomic: GTCTGACGTGGATGAACTCAACGAAGCCA-TCTCTGCCCTCGATGGACAGgtaccctact ... tgatttacagAACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatgattttgtgatgtatctcttaatcgacctttcattgtctcttgatttacagAACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCAAGGCGTGGATATTAAAGCTGAGATCTAGCTGTGCCCTCTCTCTCTCCCT
                              cctttcattgtctctt  CT-rich tract
                                            ttgattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaccctactcttcctcatatatggttatgctaatgcagtcaacatgattttgtgatgtatctcttaatcgacctttcattgtctcttgatttacagAACTTGGAGGGTAGAGCAATCAGAGTGAATGTAGCGGAAGAGCGTCCTCCAAGGCGTGGATATTAAAGCTGAGATCTAGCTGTGCCCTCTCTCTCTCCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC