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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat...

Basic information

species Oryza sativa
transcript LOC_Os08g32620.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G871463_T01 (Zea mays), 5'ss of exon 1
-------------------------------ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtcta--tatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat
                                || ||||| ||||||||||| |||||||| ||||| |||||||||||||||||||  |||||| |||||||  |   |||  |           |||   | || |    | |   | |  |    ||  | |     |   |   ||  ||  |  || |  | ||   
GTGATGATTGGGTTGTCTATTTTCTCTCAAGGTATTGCAAATGTGAGATGCCGTACAACCCCGATGACCTCATGGTGCAGTGCGATGCTTGCAAGCACTGgtacatttgttacaatgatttgcaatttacatttcactgatatttgcctttgttccccgtctattatgtgactgtacaaagcatgttttaaat--ctcctga

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G871463_T02 (Zea mays), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtcta--tatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat
 || ||||| ||||||||||| |||||||| ||||| |||||||||||||||||||  |||||| |||||||  |   |||  |           |||   | || |    | |   | |  |    ||  | |     |   |   ||  ||  |  || |  | ||   
GTATTGCAAATGTGAGATGCCGTACAACCCCGATGACCTCATGGTGCAGTGCGATGCTTGCAAGCACTGgtacatttgttacaatgatttgcaatttacatttcactgatatttgcctttgttccccgtctattatgtgactgtacaaagcatgttttaaat--ctcctga

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G119357_T01 (Zea mays), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat-------
 || ||||| |||||||||||||||||||||||||| ||||||||||||||||| |  ||||||||||||||  |   |   | ||     |    | |    ||||||| |  ||||  ||  | |   | |   | |    |   | | || | || ||      ||       
GTATTGCAAATGTGAGATGCCATACAACCCGGATGACCTCATGGTGCAGTGCGAAGCTTGCAAGGACTGgtacatttgtc--tcaatgattttcaattt---acatttcactg-atatt-tgcctttgttcagtctattttatgcttctacaaagcaaatgctttaaatctctgga

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat---
 || ||||| ||||||||||| || |||||||||||||||||||| || || || |  |||||||| ||||||  |      ||  | || | |  | || ||  ||  | | | | | | |  || |   ||   | | | |       | ||| |  ||| |        
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgc-tttactttgttgtgtt--attgtgtttggagtttggattttgcttatttaggtgtttgtttatgtatgtggaatttgagaa

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA06G34850.1 (Glycine max), 5'ss of exon 2
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtctatata-gtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat
 || ||||| ||||||||||| || |||||||||||||||||||| || || || |  |||||||| ||||||  |      ||  | |  |   ||    || | ||  |  | | |   || ||||  | |   | |    | |   | | |     |||  |   ||
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtttattctgatttactttgtttggagtttggattttgtttatgtatgtggaatttgagaaatagatgttatttactgggttga-agggat

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA12G35680.2 (Glycine max), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat-----
 || |||||||| |||||||| || ||||| ||||| |||||||||||||| || |  |||||||| ||||||  ||| |  ||  | || |   || |  |   | | | |  || | |||| ||     ||||    |  |     |||  |   ||| | |  | |     
GTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGgtaaagccagtg-tattctgctttctttgt--ttactgttattacat-ttgtgagtggtttttggatgtccgggtctctaattttagcattag-atgcgttgttt

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA13G34740.1 (Glycine max), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat----
 || |||||||| |||||||| || ||||| ||||| |||||||||||||| || |  |||||||| ||||||  ||| || ||  | || | | || || |   | | | |  || | |||| ||     |||              |||  |   ||| | |  | |    
GTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGgtaaaaccagta-tattctgctttt-ttttgtttactgttattacat-ttgtgagtggtttttggttgtctggttctctaattttagcattag-atgcgttgtt

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT4G22140.2 (Arabidopsis thaliana), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat-----------------------------------
 |||||||| ||||| ||||| ||||| || || ||||||||||||||||| || | |||||| ||||||||| |      ||    |   | | |||   | | |    || | |  |  |||   | |||  |      |  | | | | | | | |     ||                                      
GTACTGCAAATGTGAAATGCCTTACAATCCAGACGATCTCATGGTGCAGTGTGAAGGCTGCAAAGACTGgtaaatgttgatatttgtcttttttattaacttccttacttgtgtttcaacagaaaagagactatatgtctgtttttaaacttacgtattcttttccaggaattattgataataagcattaattcgctgttgtag

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv12s0059g01180.t01 (Vitis vinifera), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccatta-ataaaccgcctctgttatgatgcatttcagtcta--tatagtgaat--gtacactggaaaatcatg--gtaacaataatgaa-attggcacccat
 || || ||||| |||||||| || || ||||| || || |||||||||||||| |  ||||||||||||||      ||  |||       | ||||  | |       |  |||   | |   |||   | | ||| | | |  ||  ||     |  | || ||||        
GTATTGTAAGTGCGAGATGCCTTATAATCCGGACGACCTTATGGTGCAGTGCGAAGGATGCAAGGACTGgtatacttgttgcatattttttatttgttcagttatgcggaaaactaatcaaaagaaattaatgccctgtacatttgtgaggttttggttttaaatattg--------

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv10s0116g00160.t01 (Vitis vinifera), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaatt--ccattaataaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat
 || ||||| || |||||||| || ||||| |||||||| ||||| |||||||| |  |||||||||||||||    |  ||  ||  |      ||   |   |  | |   | | | | |||    | || |     ||| || |     |||  | || |  || || 
GTATTGCAAATGCGAGATGCCTTATAACCCAGATGATCTTATGGTCCAGTGCGAGGGGTGCAAGGACTGgtaacctgcttttgttattcttttgttgggtttccggttgttgttgtgttttgtgtcatttcagttttgtatc-tgatt-ttgtaaaaacatggaaactcaa

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: PP1S384_37V6.1 (Physcomitrella patens), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaa----taaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat
 || |||||||||||||||||||||||||| ||  |  | ||| || | ||| |    ||||| ||||||| |      |      |||     |||     ||| |   ||  |   |   ||| | |  | ||| |    ||    |||   |  ||   |||   |    
GTATTGCAAGTGTGAGATGCCATACAACCCTGACCACGTGATGCTGGAATGCAACAGTTGCAAAGACTGgtgaggttgctgtgctctaatattgctcatcagtgaagtgctt--gctcagtcagtcagtaaagactcgtgcctcgacctaagtctcgtgcgcttgaagctt--

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ17782 (Selaginella moellendorffii), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattcca-ttaat--aaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat
 || ||||||||||||||||||||||| ||||| ||| | ||||| ||||||||   ||||||||| |||||| |||  || ||  ||||   |   ||| |||||||    |  ||   | | |  |  |                                         
GTATTGCAAGTGTGAGATGCCATACAATCCGGACGATTTGATGGTTCAGTGCGAGTCCTGCAAGGATTGgtaagtcctcttcatccaaacgagcaaagttttgatgcaaaata-cctcctttgcgtctccag----------------------------------------

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ16306 (Selaginella moellendorffii), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattcca-ttaat--aaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat
 || ||||| ||||||||||||||||| ||||| ||| | ||||| ||||||||   ||||||||| |||||| |||  || ||  ||||   |   ||| |||||||    |  ||   | | |  |  |                                         
GTATTGCAAATGTGAGATGCCATACAATCCGGACGATTTGATGGTTCAGTGCGAGTCCTGCAAGGATTGgtaagtcctcttcatccaaacgagcaaagttttgatgcaaaata-cctcctttgcgtctccag----------------------------------------

upper sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ26805 (Selaginella moellendorffii), 5'ss of exon 3
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat
 ||||||||||| |||||||| ||||||||||||||||| ||||||||||| || || ||||| |||||||||          || | |  ||| | |  || ||    || ||    ||      | |  || ||||  |||| |                       
GTACTGCAAGTGCGAGATGCCTTACAACCCGGATGATCTTATGGTGCAGTGTGAGGAGTGCAAAGACTGgtaag---------aatcagtttctctca-aatccaaa--agccttggcagcc----tccgatgaaaaaa-atggcag----------------------

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|33801423|gb|CF326583.1|CF326583
EST:     CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTG                         GTTTCATCCTTCATGCATGAGCATGACGATTGAGCAGGCCAAAAAACTAGA
genomic: CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccat ... ctgtatgcagGTTTCATCCTTCATGCATGAGCATGACGATTGAGCAGGCCAAAAAACTAGA
EST: gi|88478431|gb|CI415702.1|CI415702
EST:     CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTG                         GTTTCATCCTTCATGCATGAGCATGACGATTGAGCAGGCCAAAAAACTAGA
genomic: CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccat ... ctgtatgcagGTTTCATCCTTCATGCATGAGCATGACGATTGAGCAGGCCAAAAAACTAGA
EST: gi|88485934|gb|CI423205.1|CI423205
EST:     CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTG                         GTTTCATCCTTCATGCATGAGCATGACGATTGAGCAGGCCAAAAAACTAGA
genomic: CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccat ... ctgtatgcagGTTTCATCCTTCATGCATGAGCATGACGATTGAGCAGGCCAAAAAACTAGA
EST: gi|88845520|gb|CI084445.1|CI084445
EST:     CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTG                         GTTTCATCCTTCATGCATGAGCATGACGGTTGAGCAGGCCAAAAAACTAGA
genomic: CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccat ... ctgtatgcagGTTTCATCCTTCATGCATGAGCATGACGATTGAGCAGGCCAAAAAACTAGA
EST: gi|88508474|gb|CI435980.1|CI435980
EST:     CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTG                         GTTTCATCCTTCATGCATGAGCATGACGATTGAGCAGGCCAAAAAACTAGA
genomic: CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccat ... ctgtatgcagGTTTCATCCTTCATGCATGAGCATGACGATTGAGCAGGCCAAAAAACTAGA
EST: gi|86508991|gb|CI151624.1|CI151624
EST:     CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTG                         GTTTCATCCTTCATGCATGAGCATGACGATTGAGCAGGCCAAAAAACTAGA
genomic: CCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccat ... ctgtatgcagGTTTCATCCTTCATGCATGAGCATGACGATTGAGCAGGCCAAAAAACTAGA