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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTAACAGCTGATGGTGATGCATATCCAGCCGCATCTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtcgtttttgcctgatcgaaaactgcatttttttttgtgactctgagactaattctttgttaactcattgacag

Basic information

species Oryza sativa
transcript LOC_Os06g49990.2
intron # 15
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|27578134|gb|CB000829.1|CB000829
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|88508220|gb|CI435726.1|CI435726
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGGAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCNCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|88566864|gb|CI497581.1|CI497581
EST:     CTGCATTAATGGTTAGACAGTGCTGGTACTCCAAATGGGACTCTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|86834903|gb|CI345987.1|CI345987
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|27577736|gb|CB000431.1|CB000431
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|88384956|gb|CI559224.1|CI559224
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|88427508|gb|CI548761.1|CI548761
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|88469123|gb|CI406394.1|CI406394
EST:     CTGCATTAATGGTTAGACAGTGCTGGTACTCCAGATGGGACTCTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|88504066|gb|CI431572.1|CI431572
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAG                         TGGTTGGTTCTGGCCATGGAATGCAGCCGCAGCGGTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|88249403|gb|CI249252.1|CI249252
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|88565703|gb|CI496420.1|CI496420
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTTTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|33687915|gb|CF316154.1|CF316154
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|88565726|gb|CI496443.1|CI496443
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
EST: gi|313080000|gb|HO213320.1|HO213320
EST:     CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAG                         TGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA
genomic: CTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtc ... tcattgacagTGCTTGGTTCTGGCCATGGAATGCAGCCGCAGCGCTCAGCATGGATAAGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTAACAGCTGATGGTGATGCATATCCAGCCGCATCTGCATTAATGGTTAGACAGTGCTGCTACTCCAAATGGGACTCTAGAAAGgtatttagtcgtttttgcctgatcgaaaactgcatttttttttgtgactctgagactaattctttgttaactcattgacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT