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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACCTCTTTGCCGGTGTTGTGGATGGACGCAACATCTGGGCTGATGATCTCGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaattaagcatgaagttattatatctgttatattttaataggtacaatttgctgtatccaataatatcctcaatttctgcacatccaacaatacctttcatttctgcag

Basic information

species Oryza sativa
transcript LOC_Os12g42876.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g42876.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G149751_T02 (Zea mays), 5'ss of exon 6
TACCTCTTTGCCGGTGTTGTGGATGGACGCAACATCTGGGCTGATGATCTCGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaattaagcatgaagttattatatctgttatattttaat--aggtacaatttgctgtatccaataatatcctcaatttctgcacatccaacaatacctttcatttctgcag
||||||||||| |||||||||||||||||||||||||||||||||||||| ||| |||||||||  || ||  |||||||||||||| ||||||| |||||||    || | || || | ||||| | | |  || | ||  ||  || ||||  | ||  ||||  |||||  |  | || | | ||                            
TACCTCTTTGCTGGTGTTGTGGATGGACGCAACATCTGGGCTGATGATCTTGCTACATCTCTCAGCACTCTCCAGTCTCTTGAGGCTGTTGTTGGGAAGGgta----atcatgcttgcacttattgtctgtcataaaattggatttagttacagctggcaatatctgataatgcctaccatctgttcag---------------------------
















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|58613268|gb|CK040980.1|CK040980
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|29642741|gb|CB647748.1|CB647748
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58609313|gb|CK037346.1|CK037346
EST:     CGCTGCATCTCTCACTACCCTTGAGTCGCGTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58662965|gb|CK051651.1|CK051651
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58673851|gb|CK062537.1|CK062537
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58662936|gb|CK051622.1|CK051622
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58600754|gb|CK011282.1|CK011282
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|427970|gb|D24116.1|D24116
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGGAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|29625443|gb|CB630454.1|CB630454
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58690410|gb|CK079097.1|CK079097
EST:     -GCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGC-TGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|702346|gb|D48637.1|D48637
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58685116|gb|CK073803.1|CK073803
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58670998|gb|CK059684.1|CK059684
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|700419|gb|D46710.1|D46710
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58670579|gb|CK059265.1|CK059265
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58662664|gb|CK051350.1|CK051350
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58609090|gb|CK037123.1|CK037123
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTGGTGGTCTCGACTTCCTGCTCACTCATGCACCCCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|88312099|gb|CI580264.1|CI580264
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGGTGTGG
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGG
EST: gi|29631217|gb|CB636226.1|CB636226
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58611937|gb|CK039649.1|CK039649
EST:     CTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCGCGACCGCTGTGGAT
genomic: CTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCAC-ACCGCTGTGGAT
EST: gi|25803544|gb|CA759505.1|CA759505
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58678604|gb|CK067291.1|CK067291
EST:     CTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58657451|gb|CK046131.1|CK046131
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGAGTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58665388|gb|CK054074.1|CK054074
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58589970|gb|CF988278.1|CF988278
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|33678916|gb|CF307155.1|CF307155
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58670918|gb|CK059604.1|CK059604
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGG
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGG
EST: gi|58607483|gb|CK035516.1|CK035516
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|29684723|gb|CB680998.1|CB680998
EST:     CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58672426|gb|CK061112.1|CK061112
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGC
EST: gi|58664310|gb|CK052996.1|CK052996
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58671943|gb|CK060629.1|CK060629
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATC
EST: gi|58689279|gb|CK077966.1|CK077966
EST:     TGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGG                         ACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACAC
genomic: CGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACAC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 75 (upstream exon), 75 (downstream exon)
Score: 308

TACCTCTTTGCCGGTGTTGTGGATGGACGCAACATCTGGGCTGATGATCTCGCTGCATCTCTCACTACCCTTGAGTCTCTTGAGGCTATTGTTGGAAAGGgtaagcaatt ... atttctgcagACAAGCTTGTGGTCTCGACTTCCTGCTCACTCATGCACACCGCTGTGGATCTTGTAAATGAGACCAAGCTCGATAGCGAGATTAAGTCATGGCTCGCTTT




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