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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATATCTTCACGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgccattttttttctattttttccgttttttactttattttttattttatctttgaggattttcgatgatttttgttgtgtgtctcgcattcgta...

Basic information

species Physcomitrella patens
transcript PP1S92_47V6.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 2
TCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATATCTTCA-CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgccattttttttctatttttt-ccgttttttactttattttttattttatctttgaggattttcga--tgatttttgttgtgtgtctcgcattcgta
||| ||  | |||||||||||||||||||||||||| ||     | ||||  |       | | || || ||| || ||| | |||||    || || ||||| ||   ||    ||   | || ||  ||||| | || ||  | | || | ||  |  | ||  ||| |    | |   ||  ||||      |   || ||
TCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGTGTTCAATGTGCGGAACATCGGCAA-GACCCTCGTGTCCAGGACACAGGGTACAAAGgt-atgagcaccgcttccttgttcttggccgttgtataattc-tctgttgtgtttgcgctaagtgtttgctgcctaacccttcctgtgaacgaagggatc-ta

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G030915_T08 (Zea mays), 5'ss of exon 2
TCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATATCTTCA-CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgccattttttttctattttttccgttttttactttattttttattttatct-ttgaggattttcgatgatttttgt---tgtgtgtctcgcattcgta-
 |||||||| |||||||| |||||||| |||||||||||     | ||||  |       | | ||||| |||||| ||  | |||||    || |||| |||        ||||| ||  ||| |    ||||||   |        ||  || | | ||| | | || ||   || |   |   | |||    |||  | ||  
CCCTTTCTCTAAGAAGGATTGGTATGACATCAAGGCACCGTCGGTGTTCAGTGTGCGCAACATCGGGAA-GACTCTCGTATCCAGGACACAGGGTACCAGGgta-----tgtttttctttgattatcgatgtttttccgtactgcccctacattctgtgttgtgaacttgcgcatatatgcatgtatatgtagaccgcgctagtca

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G030915_T07 (Zea mays), 5'ss of exon 2
------TCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATATCTTCA-CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgccattttttttctattttttccgttttttactttattttttattttatctttgaggattttcgatgatttttgttgtgtgtctcgcattcgta
       |||||||| |||||||| |||||||| |||||||||||     | ||||  |       | | ||||| |||||| ||  | |||||    || |||| |||        ||||||||  | | |     ||||                                                                  
CGTCGACCCTTTCTCTAAGAAGGATTGGTATGACAtcaaggcaccgtcggtgttcagtgtgcgcaacatcgggaa-gactctcgtatccaggacacagggtaccagggta-----tgtttttttttgactatcgatatttt------------------------------------------------------------------

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G030915_T03 (Zea mays), 5'ss of exon 2
TCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATATCTTCA-CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgccattttttttctattttttccgttttttactttattttttattttatctttgaggattttcgatgatttttgt---tgtgtgtctcgcattcgta-
 |||||||| |||||||| |||||||| |||||||||||     | ||||  |       | | ||||| |||||| ||  | |||||    || |||| |||   ||   ||||||  ||||   |    |||  ||||      |  ||| | | || | | | || ||   || |   |   | |||    |||  | ||  
CCCTTTCTCTAAGAAGGATTGGTATGACATCAAGGCACCGTCGGTGTTCAGTGTGCGCAACATCGGGAA-GACTCTCGTATCCAGGACACAGGGTACCAGGgta--tgtttttttttgactatcgatattttttcgtactgc-ccctacattgtgtgtt-gtgaacttgcgcatatatgcatgtgtatgtagaccgcgctagtca

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G145258_T01 (Zea mays), 5'ss of exon 2
TCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATATCTTCA-CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgccattttttttctattttttccgttttttact--ttattttttattttatctttgaggattttcgatgatttttgttgtgtgt-ctcgcattcgta--
 |||||||| |||||||| |||||||| |||||||||||     | ||||  |       | | ||||| |||||| ||  | |||||    || |||| |||        ||||| ||  ||| |    |||||||  |  |     |   || | | ||    ||| |  |    |   ||| |   |  || |||    ||  
CCCTTTCTCTAAGAAGGATTGGTATGACATCAAGGCACCGTCGGTGTTCAGTGTGCGCAACATCGGGAA-GACTCTCGTATCCAGGACACAGGGTACCAGGgta-----tgtttttctttaattctcgatgttttttcgtactgcccctacgttctgtgttgagagatatatgcatgtccatgtagaccgcgctagcaaggttatt

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G030915_T05 (Zea mays), 5'ss of exon 2
------TCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATATCTTCA-CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgccattttttttctattttttccgttttttactttattttttattttatctttgaggattttcgatgatttttgttgtgtgtctcgcattcgta
       |||||||| |||||||| |||||||| |||||||||||     | ||||  |       | | ||||| |||||| ||  | |||||    || |||| |||   ||   ||||||  ||||   |    |||  ||||      |  ||| | | || | | | || ||                              
CGTCGACCCTTTCTCTAAGAAGGATTGGTATGACATCAAGGCACCGTCGGTGTTCAGTGTGCGCAACATCGGgaa-gactctcgtatccaggacacagggtaccagggta--tgtttttttttgactatcgatattttttcgtactgc-ccctacattgtgtgtt-gtgaacttgcg------------------------------

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EDP08964 (Chlamydomonas reinhardtii), 5'ss of exon 2
TCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATATCTTCAC-GCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca---ttttttttctattttttccgttttttactttattttttattttatctttgaggattttcgatgatttttgttgtgtgtctcgcattcgta
 || ||| ||||||||||||||||||| |||||||| ||||  || ||||| |       ||| ||| ||||| || ||||| |||||    || |||||||| |  |                |   | ||||       ||  | ||     || | | |    ||||| |    |                          
CCCCTTCGCCAAGAAGGACTGGTATGACATCAAGGCGCCCACCATGTTCACTGTCCGCAACGT-GGGCAAGACCCTGGTGACCAGGACGCAGGGTACCAAGgtgagcgagggggcggcgcccgcaccatctccgcaggccgctgcagtt---gcttcaccat----gatttcctgcaacgcag---------------------

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|67571386|gb|BJ944210.1|BJ944210
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|208360419|gb|DC950032.1|DC950032
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|19790465|gb|BQ041884.1|BQ041884
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|100450921|gb|CJ974507.1|CJ974507
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|37826206|gb|BJ584218.1|BJ584218
EST:     GGGAAAGACTCTTGTGACAAGGACTGCCGGCACCCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGA
genomic: GGGAAAGACTCTTGTGACAAGGACTGCCGGCA-CCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGA
EST: gi|18347427|gb|BJ179473.1|BJ179473
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|19777641|gb|BQ039208.1|BQ039208
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|18347038|gb|BJ179084.1|BJ179084
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|208372026|gb|DC936226.1|DC936226
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|162185712|gb|FC361566.1|FC361566
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|67694711|gb|BJ954944.1|BJ954944
EST:     AAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: AAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|6167400|gb|AW145664.1|AW145664
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|162261198|gb|FC437215.1|FC437215
EST:     GACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: GACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|100360481|gb|BY984147.1|BY984147
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|18345407|gb|BJ177450.1|BJ177450
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|18351838|gb|BJ183890.1|BJ183890
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|18371606|gb|BJ203208.1|BJ203208
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGANGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|18373995|gb|BJ205573.1|BJ205573
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|162216969|gb|FC393087.1|FC393087
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
EST: gi|19788665|gb|BQ040844.1|BQ040844
EST:     CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAG                         ATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT
genomic: CGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGCACCAAGgttattgcca ... gtggtatcagATTGCCTCCGATGGTTTGAAGGGCCGTGTGTTTGAGGTCTCCTTGGCTGAT