Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctcaactatctgtttactcttattatagatatatagtcatctatgcttcataactaatgcttttttctttgtattatcagACATACGAAAAGGTAGCCACAGTGTTTAAACAGGAAGAAGGTGTAGTCATCGCCAATTTGGATGCTGATGCACACAAAGCCCTTGGCGAGAA

Basic information

species Arabidopsis thaliana
transcript AT2G47470.3
intron # 6
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|124917298|gb|EH991172.1|EH991172
EST:     GTGTGGCCACTGCAAATCACTCGCTCCC                         ACATACGAAAAGGTAG
genomic: GTGTGGCCACTGCAAATCACTCGCTCCCgtaagctcaa ... gtattatcagACATACGAAAAGGTAG
EST: gi|164056563|gb|ES074795.1|ES074795
EST:     GCAAATCACTCGCTCCC                         ACATACGAAAAGGTAGCCACAGTGTTTAAACAGGAAGAAGGTGTAGTCATC
genomic: GCAAATCACTCGCTCCCgtaagctcaa ... gtattatcagACATACGAAAAGGTAGCCACAGTGTTTAAACAGGAAGAAGGTGTAGTCATC
EST: gi|301501187|gb|HO206727.1|HO206727
EST:     GTGTGGCCACTGCAAATCACTCGCTCCC                         ACATACGAAAAGGTAGCCACAGTGTTTAAACA
genomic: GTGTGGCCACTGCAAATCACTCGCTCCCgtaagctcaa ... gtattatcagACATACGAAAAGGTAGCCACAGTGTTTAAACA
EST: gi|116441307|gb|EG483899.1|EG483899
EST:     GTGCGGCCACTGCAAATCACTCGCTCCC                         ACATACGAAAAGGTAGCCACAGTGTTTAACCAGGAAGAAGGTGTAGTCATC
genomic: GTGTGGCCACTGCAAATCACTCGCTCCCgtaagctcaa ... gtattatcagACATACGAAAAGGTAGCCACAGTGTTTAAACAGGAAGAAGGTGTAGTCATC
EST: gi|125282394|gb|EL296479.1|EL296479
EST:     CTGCAAATCACTCGCTCCC                         ACATACG-AAAGGTAGCCACAGTGTTTAAACAGGAAGAAGGTGTAGTCATC
genomic: CTGCAAATCACTCGCTCCCgtaagctcaa ... gtattatcagACATACGAAAAGGTAGCCACAGTGTTTAAACAGGAAGAAGGTGTAGTCATC
EST: gi|116441306|gb|EG483898.1|EG483898
EST:     GTGCGGCCACTGCAAATCACTCGCTCCC                         ACATACGAAAAGGTAGCCACAGTGTTTAACCAGGAAGAAGGTGTAGTCATC
genomic: GTGTGGCCACTGCAAATCACTCGCTCCCgtaagctcaa ... gtattatcagACATACGAAAAGGTAGCCACAGTGTTTAAACAGGAAGAAGGTGTAGTCATC
EST: gi|124963405|gb|EL037743.1|EL037743
EST:     CATGGTGTGGCCACTGCAAATCACTCGCTCCC                         ACATACGAAAAGGTAGCCACAGTGTTTA
genomic: CATGGTGTGGCCACTGCAAATCACTCGCTCCCgtaagctcaa ... gtattatcagACATACGAAAAGGTAGCCACAGTGTTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagatatatagtcatctatgcttcataactaatgcttttttctttgtattatcagACATACGAAAAGGTAGCCACAGTGTTTAAACAGGAAGAAGGTGTAGTCATCGCCAATTTGGATGCTGATGCACACAAAGCCCTTGGCGAGAA
                          aactaat  putative branch site (score: 2)
                                  cttttttctttgtatt  CT-rich tract
                                   ttttttctttgtatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagctcaactatctgtttactcttattatagatatatagtcatctatgcttcataactaatgcttttttctttgtattatcagACATACGAAAAGGTAGCCACAGTGTTTAAACAGGAAGAAGGTGTAGTCATCGCCAATTTGGATGCTGATGCACACAAAGCCCTTGGCGAGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT