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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGCTGGGGAACATACTGCCCTGGGGAGTACCCGAGCCCACCTCCGGAGTACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAGgtacttcatttctgttatctctatgtcttttctaccattatggtatgatacaatcctatccttatcctaccagttttcactcatgtggaaccagttttgg...

Basic information

species Oryza sativa
transcript LOC_Os01g37910.3
intron # 5
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|58692028|gb|CK080715.1|CK080715
EST:     TGCTTGGATGGAAGACAG                         CGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
genomic: TGCTTGGATGGAAGACAGgtacttcatt ... acattgacagCGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
EST: gi|51946162|gb|CV152503.1|CV152503
EST:     ATGGAAGACAG                         CGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
genomic: ATGGAAGACAGgtacttcatt ... acattgacagCGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
EST: gi|58686800|gb|CK075487.1|CK075487
EST:     TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAG                         CGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
genomic: TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAGgtacttcatt ... acattgacagCGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
EST: gi|4715544|gb|AU056660.1|AU056660
EST:     TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAG                         CGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
genomic: TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAGgtacttcatt ... acattgacagCGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
EST: gi|58592657|gb|CF990965.1|CF990965
EST:     TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAG                         CGATGTCCACAACCTGAGAACTGAATCAGGCAAGCAGCAGTACAATCTC
genomic: TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAGgtacttcatt ... acattgacagCGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
EST: gi|163923567|gb|EG713308.1|EG713308
EST:     TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAG                         CGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATC
genomic: TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAGgtacttcatt ... acattgacagCGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATC
EST: gi|58692781|gb|CK081468.1|CK081468
EST:     GACACATGCCTA-GGGACTTGTACAGCGTTGCTTGGATGGAAGACAG                         CGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
genomic: GACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAGgtacttcatt ... acattgacagCGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
EST: gi|88387208|gb|CI580553.1|CI580553
EST:     TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAG                         CGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
genomic: TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAGgtacttcatt ... acattgacagCGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
EST: gi|58692937|gb|CK081624.1|CK081624
EST:     TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAG                         CGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
genomic: TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAGgtacttcatt ... acattgacagCGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
EST: gi|58691202|gb|CK079889.1|CK079889
EST:     TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAG                         CGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
genomic: TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAGgtacttcatt ... acattgacagCGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
EST: gi|58688098|gb|CK076785.1|CK076785
EST:     TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAG                         CGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC
genomic: TACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAGgtacttcatt ... acattgacagCGATGTCCACAACCTGAGAACTGAATCACTCAAGCAGCAGTACAATCTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCAGCTGGGGAACATACTGCCCTGGGGAGTACCCGAGCCCACCTCCGGAGTACGACACATGCCTAGGGGACTTGTACAGCGTTGCTTGGATGGAAGACAGgtacttcatttctgttatctctatgtcttttctaccattatggtatgatacaatcctatccttatcctaccagttttcactcatgtggaaccagttttgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA