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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGTCTGAAAGAGCTAATGGTCTATTGCAGAGCCTAAGATTGAGATATCCTGGTCTGCCACAAACCTCCCTTGACATGAACAAGATCCAGTATAACAAGgtaaagcctgtgcaaagacaagtaaccacctacttattctggccaaaacacaattgataaagtctttttctttcaattacacaaatcataatattcactttgtttctttgaaaatttcccag

Basic information

species Zea mays
transcript GRMZM2G105253_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G105253_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os09g37270.2 (Oryza sativa), 5'ss of exon 3
TTTGTCTGAAAGAGCTAATGGTCTATTGCAGAGCCTAAGATTGAGATATCCTGGTCTGCCACAAACCTCCCTTGACATGAACAAGATCCAGTATAACAAGgtaaagcctgtgcaaagacaagtaaccacctacttattctggccaaaacacaattgataaagtctttttctttcaattacacaaatcataatattcactttgtttctttgaaaatttcccag
||||||  |||||||| ||||  | ||||| ||| |||||||| |||| |||||| ||||||||||||| || ||||||||||||||||||||||||||||| |  |||        |||  | | |      | | | || | || |        |    | |||    ||   |||  |    ||||      |  | | |||| |  |           
TTTGTCCCAAAGAGCTGATGGGTTGTTGCAAAGCTTAAGATTGCGATACCCTGGTTTGCCACAAACCTCTCTCGACATGAACAAGATCCAGTATAACAAGgttattcctc-------acattttatc-ttagttgaatatgtcaaacaagttgggcacttgggcttagagttagcattgtatggttcatt---caccttctatttcatcaa-----------

upper sequence: GRMZM2G105253_T03 (Zea mays), 5'ss of exon 3
lower sequence: PP1S283_2V6.1 (Physcomitrella patens), 5'ss of exon 6
-TTTGTCTGAAAGAGCTAATGGTCTATTGCAGAGCCTAAGATTGAGATATCCTGGTCTGCCACAAACCTCCCTTGACATGAACAAGATCCAGTATAACAAGgtaaagcctgtgcaaagacaagtaaccacctacttattctggccaaaacacaattgataaagtctttttctttcaattacacaaatca-taatattcactttgtttctttgaaaatttcccag
  ||| |||| | |||  |   | | ||||| | | | |  ||| | |  || ||  | ||||||||  |||||||||||||||||||||||||||||||||||     ||  ||     |  | |     |  | |   | ||  ||      |||||  | | ||       ||||   | |  | | ||  |||| |||   |                  
GATTG-CTGATAAAGCAGAGACTATGTTGCACACCTTGAAGTTGCGGTTCCCAGGGTTACCACAAACTGCCCTTGACATGAACAAGATCCAGTATAACAAGgta-----tgcacacctgtatatcattgtttcttaaaggttgc--aattgttgttgatgca-tattggcgccccaatgttaaatttaactagaattcgcttgactata---------------

upper sequence: GRMZM2G105253_T03 (Zea mays), 5'ss of exon 3
lower sequence: PP1S22_225V6.1 (Physcomitrella patens), 5'ss of exon 6
-TTTGTCTGAAAGAGCTAATGGTCTATTGCAGAGCCTAAGATTGAGATATCCTGGTCTGCCACAAACCTCCCTTGACATGAACAAGATCCAGTATAACAAGgtaaagcctgtgcaaagacaagtaaccacctacttattctggccaaaacacaattga----taaagtctttttctttcaat-tac-----acaaatcataatattcactttgtttctttgaaaatttcccag-----------------------------------------------------------
  ||| |||| | |||  |   | | ||||| ||| | |  ||  | |  || ||  ||||||||||| ||||||| ||||||||||| |||||||||||||||    |    |   | ||| |       | ||| |  | |   |     | |||      || ||  |  | ||  ||| | |     |  ||   |||| | ||   |||     || |    || | |                                                           
GATTG-CTGATAAAGCGGAGTCTATGTTGCATAGCTTGAAGTTACGGTTCCCAGGGTTGCCACAAACCGCCCTTGATATGAACAAGATTCAGTATAACAAGgtagtcgcatccccgtgtcaattttttgtttgcttgtcatagttgacgtttatttgcatcccaatgttatccttttggaatctgcccgtgatgaactgtaatctacatcatgtgaggctgtagtcgtctctgcaattcatttttatgtcgttgctattggagctgactgggttttcgtcttctgcacgtag

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|26457008|gb|CA828591.1|CA828591
EST:     CTGGTCTGCCACAAACCTCCCTTGACATGAACAAGATCCAGTATAACAAG                         GATGTTGGGCAGTCCATACTTGAAAGTTACTCAAGGGTTCTGGAGAGCTTG
genomic: CTGGTCTGCCACAAACCTCCCTTGACATGAACAAGATCCAGTATAACAAGgtaaagcctg ... aatttcccagGATGTTGGGCAGTCCATACTTGAAAGTTACTCAAGGGTTCTGGAGAGCTTG
EST: gi|76288447|gb|DV028015.1|DV028015
EST:     CTGGTCTGCCACAAACCTCCCTTGACATGAACAAGATCCAGTATAACAAG                         GATGTTGGGCAGTCCATACTTGAAAGTTACTCAAGGGTTCTGGAGAGCTTG
genomic: CTGGTCTGCCACAAACCTCCCTTGACATGAACAAGATCCAGTATAACAAGgtaaagcctg ... aatttcccagGATGTTGGGCAGTCCATACTTGAAAGTTACTCAAGGGTTCTGGAGAGCTTG
EST: gi|18383629|gb|BM416829.1|BM416829
EST:     AAGATCCAGTATAACAAG                         GATGTTGGGCAGTCCATACTTGAAAGTTACTCAAGGGTTCTGGAGAGCTTG
genomic: AAGATCCAGTATAACAAGgtaaagcctg ... aatttcccagGATGTTGGGCAGTCCATACTTGAAAGTTACTCAAGGGTTCTGGAGAGCTTG
EST: gi|21891658|gb|BQ744871.1|BQ744871
EST:     CTGGTCTGCCACAAACCTCCCTTGACATGAACAAGATCCAGTATAACAAG                         GATTGTTGGGCAGTCCATACTTGAAAGTTACTCAAGGGTTCTGGAGAGCTC
genomic: CTGGTCTGCCACAAACCTCCCTTGACATGAACAAGATCCAGTATAACAAGgtaaagcctg ... aatttcccagGAT-GTTGGGCAGTCCATACTTGAAAGTTACTCAAGGGTTCTGGAGAGCTT