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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcctcatggctccttgttttttacttgaactttcttgttcaatgcacatcatgtttggtactgcatggatgatttgaatgctctttcttttcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT

Basic information

species Zea mays
transcript GRMZM2G139683_T01
intron # 2
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 2
lower sequence: LOC_Os10g41450.1 (Oryza sativa), 3'ss of exon 2
gcctcatggctcct--tgttttttacttgaactttcttgttcaatgcacatcatgtttggtactgcatg---gatg--atttgaatgctctttctt-ttcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT
        ||| ||  | ||||| |    | |   |||||| ||||   |      ||  ||||| |||    |||  |||||  |  | |||||| |    ||| ||||||||| |||||||| || || ||||||||||||||||||||||| ||||||||||| |||||||||||||| || ||||| ||||||||||||||
--------gcttctgctatttttaatggaatcaaacttgttaaatgagtactgaaattaatactgtatgtaaaatggcatttggctaatatttcttatgttgaaacagATCTAGCACAGAATAGGTACTTTGAGGATGAGGCATTTATCGGGTATCTCAAGTATCTCAAATACTGGCAGCGTCCGGAGTACATCAAATACATAAT

upper sequence: GRMZM2G139683_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g07020.2 (Oryza sativa), 3'ss of exon 1
----gcctcatggctccttgttttttacttgaactttcttgttcaatgcacatcatgtttggtactgcatggatgatttgaatgctctttcttttcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT
      | ||  ||| ||  | || |   |    |      || ||      |          |  | ||    | ||||     | ||  | |    ||| ||||||||||||||| ||||| || ||||||||||| |||||||| || ||||||||||| || || |||||||| || ||||| ||||| ||||||||
attactcccaatgcttctgatattgtcagtaggttcaaacttttaagatgagta----ccaaaatggaatactggctttgttaatttttcttatgttgaaacagATCTAGCGCAGAACAGATACTTTGAGGATGAGGCGTTTATCGGTTATCTCAAGTATCTCAAGTATTGGCAGCGTCCGGAGTACATCAAGTACATAAT

upper sequence: GRMZM2G139683_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT5G19910.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------gcctcatggctccttgttttt-tacttgaactttcttgttcaatgcacatcatgtttggtact--gcatggatgatttgaatgctctttcttttccca------aatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT
               |    ||||||    |||||  |  | ||| ||     || ||     ||    | |    ||  |  |   |  ||   |   |||   |||    |         ||| || || |||||| | ||||| || ||||| |||||||| || ||| | ||||||||  |||||||||||||||||||||| ||||| | ||| ||
gtaagtttagaattcgttctatggcttagggttttagtgttcgaaattgagatttaaaaagggatttgttctaaggcttagggtttgtacttaccacattctgcttttggttactgtttggcagACCTGGCACAGAATCGGTATTTTGAAGATGAAGCATTTATTGGATACTTGAAGTATCTTCAATACTGGCAGCGACCAGAGTACATCAAGTTCATTAT

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:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATT-ATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|211340893|gb|FL146102.1|FL146102
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|211343280|gb|FL146111.1|FL146111
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|71765862|gb|DR963799.1|DR963799
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|211343276|gb|FL146107.1|FL146107
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATT-ATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|28910217|gb|CB331329.1|CB331329
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|26559121|gb|CA831356.1|CA831356
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|211343275|gb|FL146106.1|FL146106
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|87157028|gb|DY401817.1|DY401817
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|22521504|gb|BU080315.1|BU080315
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|211340894|gb|FL146103.1|FL146103
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|60352751|gb|DN219724.1|DN219724
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|211343278|gb|FL146109.1|FL146109
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA
EST: gi|211340891|gb|FL146100.1|FL146100
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACKCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTA
EST: gi|211340890|gb|FL146099.1|FL146099
EST:     ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACT                         ATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATT-ATCGGGTACCTCA
genomic: ACTCGAGTTGGAGTTCGTGCAGTGCCTCGCCAACCCTACCTACATCCACTgtactgtact ... tcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatcatgtttggtactgcatggatgatttgaatgctctttcttttcccaaatagATCTAGCGCAGAATAGATATTTCGAGGATGAGGCATTTATCGGGTACCTCAAGTATCTAAAATACTGGCAGCGACCAGAGTATATCAAATACATAAT
                                 tgctctttcttttccc  CT-rich tract
                          atttgaat  TA-rich tract