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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtttgtgtaccgaaagtgcaatttacttattatattttacgtctagtattttttctgtgattttttcactactgttgactaatgctggcacttctacagTGATGCAATGAAGATACACTATCCTTCATG

Basic information

species Oryza sativa
transcript LOC_Os06g29310.2
intron # 7
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|88334047|gb|CI641098.1|CI641098
EST:     GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATG                         TGATGCAATGAAGATACACTATCCTTCATG
genomic: GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATGgtaaatgagt ... acttctacagTGATGCAATGAAGATACACTATCCTTCATG
EST: gi|88331767|gb|CI640798.1|CI640798
EST:     GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATG                         TGATGCAATGAAGATACACTATCCTTCATG
genomic: GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATGgtaaatgagt ... acttctacagTGATGCAATGAAGATACACTATCCTTCATG
EST: gi|33793431|gb|CF322595.1|CF322595
EST:     GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATG                         TGATGCAATGAAGATACACTATCCTTCATG
genomic: GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATGgtaaatgagt ... acttctacagTGATGCAATGAAGATACACTATCCTTCATG
EST: gi|33794144|gb|CF322962.1|CF322962
EST:     GGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATG                         TGATGCAATGAAGATACACTATCCTTCATG
genomic: GGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATGgtaaatgagt ... acttctacagTGATGCAATGAAGATACACTATCCTTCATG
EST: gi|88331768|gb|CI640799.1|CI640799
EST:     GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATG                         TGATGCAATGAAGATACACTATCCTTCATG
genomic: GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATGgtaaatgagt ... acttctacagTGATGCAATGAAGATACACTATCCTTCATG
EST: gi|88573239|gb|CI664810.1|CI664810
EST:     GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATG                         TGATGCAATGAAGATACACTATCCTTCATG
genomic: GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATGgtaaatgagt ... acttctacagTGATGCAATGAAGATACACTATCCTTCATG
EST: gi|88333541|gb|CI656613.1|CI656613
EST:     GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATG                         TGATGCAATGAAGATACACTATCCTTCATG
genomic: GATGGAGATACTTGCATTTCAGACTCTGCAGAAAAAACATCCTCTGCATGgtaaatgagt ... acttctacagTGATGCAATGAAGATACACTATCCTTCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtattttttctgtgattttttcactactgttgactaatgctggcacttctacagTGATGCAATGAAGATACACTATCCTTCATG
                                gactaat  putative branch site (score: 2)
                                            cacttct  putative PPT
             tgatttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtttgtgtaccgaaagtgcaatttacttattatattttacgtctagtattttttctgtgattttttcactactgttgactaatgctggcacttctacagTGATGCAATGAAGATACACTATCCTTCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA