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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATTGGGGGTGGTTCACTTCTGACTAACGCATCCAGCAGTCTCTGAGTTGTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaaccgaagctcatctctgcaccctccaatacctgatacggcaatttgttactactgccagattgtgtgcttagaaagtccatcaagtaccaaac...

Basic information

species Oryza sativa
transcript LOC_Os01g64170.5
intron # 2
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|88282018|gb|CI403414.1|CI403414
EST:     AGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: AGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88297945|gb|CI555960.1|CI555960
EST:     GCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88504005|gb|CI431511.1|CI431511
EST:     GAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGNATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|58690098|gb|CK078785.1|CK078785
EST:     GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88477642|gb|CI414913.1|CI414913
EST:     CGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: CGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|86869004|gb|CI335571.1|CI335571
EST:     GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|86896027|gb|CI330035.1|CI330035
EST:     GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAAT-GACATCGAGATCTTTACTATA
genomic: GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88276178|gb|CI396782.1|CI396782
EST:     TCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: TCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|86834939|gb|CI346023.1|CI346023
EST:     GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88482507|gb|CI419778.1|CI419778
EST:     GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|33680924|gb|CF309163.1|CF309163
EST:     GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88517803|gb|CI444372.1|CI444372
EST:     CCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: CCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88515448|gb|CI443102.1|CI443102
EST:     GATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88490195|gb|CI427467.1|CI427467
EST:     GTCATTTCATTCAGANCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88517012|gb|CI444666.1|CI444666
EST:     GATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88366386|gb|CI553784.1|CI553784
EST:     GTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88506735|gb|CI434241.1|CI434241
EST:     GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|88255227|gb|CI354051.1|CI354051
EST:     GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
EST: gi|86836519|gb|CI348388.1|CI348388
EST:     GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAG                         GAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA
genomic: GTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaacc ... tatgatgcagGAGACTGAGAATTTATACTAGTTCTGAATGGACATCGAGATCTTTACTATA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATTGGGGGTGGTTCACTTCTGACTAACGCATCCAGCAGTCTCTGAGTTGTCATTTCATTCAGAGCCGGCCGATTGCATGTGTTCGTCCTGACAGCAAGgtaactaaccgaagctcatctctgcaccctccaatacctgatacggcaatttgttactactgccagattgtgtgcttagaaagtccatcaagtaccaaac

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG