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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgataccatattcagtggttttttctgcaacagaggaaatggcttgctcattgtttttgctgatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG

Basic information

species Zea mays
transcript GRMZM2G139683_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139683_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g07020.2 (Oryza sativa), 3'ss of exon 2
gtgagtgataccatattcagtggttttttctgcaacagag-------------gaaatggctt-gctcattgtttttgctgatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG
||| |||   | ||| |   | | ||| |||||||    |             |||||  ||| | |||| ||  ||||||||||||||||||||||||||||||||||||||||||||| ||||||||||| |||||||| |||||||||||||||||| ||| ||||
gtgtgtggccctataatt--tagatttatctgcaagtaggtgcctgctgtgacgaaatacctttgttcatagtggttgctgatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTCCTCCAAAATGCGAATTTCCGGAATGCAATGGCACATCCAGCAAGCAAG

upper sequence: GRMZM2G139683_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os10g41450.1 (Oryza sativa), 3'ss of exon 3
gtgagtgataccata-ttcagtggttttttctgcaaca----------gaggaaatggcttgctcattgtttttgctgatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG
|||||||     ||| || ||   | ||| ||   |            ||  |||| ||||| |||   |  ||| || |  || |||||||| ||||||||||||||||||||||| ||||||||||| |||||||| ||||||||||| |||||| ||| ||||
gtgagtggccgtataatttagatctgtttgctagtaggtgcttgctgtgacaaaatagcttggtcacactggttgttgtttgtgtagGTATCCGCACTGCCTTTTCTTTCTTGAGCTCCTCCAAAATGCGAATTTCCGGAATGCAATGGCCCATCCAGCAAGCAAG

upper sequence: GRMZM2G139683_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G38750.2 (Glycine max), 3'ss of exon 4
--------------------gtgagtgataccatattcagtggttttttctgcaacagaggaaatggcttgctcatt--gtttttgctgatga-tgc-agGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG
                            ||    |||   || |||  | | |    |  |   ||   | || | |  ||  ||    |||| ||| |||||||| || ||||| |  ||||||||||| || || ||||| ||||| || ||||||||||| |||||||| || |||
tctgttactttttttcttcccacccccttatttcatttgatgttttgctttactctggctgggttgctatcctaacttggtcattttctatgaatgctagGTATCCTCATTGCCTCTATTTTCTTGAGCTGCTTCAGAATGCAAATTTTCGCAATGCAATGGCGCATCCAACCAATAAG

upper sequence: GRMZM2G139683_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G28990.1 (Glycine max), 3'ss of exon 3
--------------------gtgagtgataccatattcagtggttttttctgcaacagaggaaatggcttgctcatt--gtttttgctgatga-tgc-agGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG
                            ||    |||   || |||  | | |    |  ||  ||   | || |||  ||  ||    |||| ||| |||||||| || ||||| |  ||||||||||| || || ||||| ||||| || || ||||||||||||||||| || |||
tcttttacttcttttctgcccacccccttatttcatttgatgttttgctttactctggctgagttgctatcctaatttagtcattttctatgaatgctagGTATCCTCATTGCCTCTATTTTCTTGAGCTGCTTCAGAATGCAAATTTTCGCAACGCAATGGCACATCCAACCAATAAG

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|211343281|gb|FL146112.1|FL146112
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAAT
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAAT
EST: gi|211340893|gb|FL146102.1|FL146102
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATT
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATT
EST: gi|211343280|gb|FL146111.1|FL146111
EST:     CTCAAGTATCTAADATACTGGCAGCGACCAGAGTATATCAWATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCT
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCT
EST: gi|71765862|gb|DR963799.1|DR963799
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
EST: gi|211343276|gb|FL146107.1|FL146107
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
EST: gi|28910217|gb|CB331329.1|CB331329
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
EST: gi|26559121|gb|CA831356.1|CA831356
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
EST: gi|211343275|gb|FL146106.1|FL146106
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCC
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCC
EST: gi|94479606|gb|EB708564.1|EB708564
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
EST: gi|87157028|gb|DY401817.1|DY401817
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
EST: gi|22521504|gb|BU080315.1|BU080315
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
EST: gi|211340894|gb|FL146103.1|FL146103
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
EST: gi|32837416|gb|CD977094.1|CD977094
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
EST: gi|60352751|gb|DN219724.1|DN219724
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
EST: gi|211343278|gb|FL146109.1|FL146109
EST:     TCAAGTATCTAAAATACTGGCAGCGACCAWGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAA
genomic: TCAAGTATCTAAAATACTGGCAGCGACCA-GAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAA
EST: gi|211340890|gb|FL146099.1|FL146099
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
EST: gi|5901084|gb|AW042184.1|AW042184
EST:     CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT                         GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG
genomic: CTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAATgtgagtgata ... gatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttttttctgcaacagaggaaatggcttgctcattgtttttgctgatgatgcagGTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG
                                         tgctgat  putative branch site (score: 3)
                                 attgttttt  TA-rich tract