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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagttgttacttcaattctgtagttaagtattatgcttcatatttccttcgttcttttgtttgggggttgaggacttacatttccttctcatacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATAGGAAGCACAACCGCACCTCATCAGATATAAGTGATCCTTCCACACCTAG

Basic information

species Zea mays
transcript GRMZM2G007283_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G007283_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g02830.2 (Oryza sativa), 3'ss of exon 1
tagttgttacttcaattctgtagttaagtattatgcttcatatttccttcgttcttttgtttgggggttgaggacttac-atttccttctcatacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATAGGAAGCACAACCGCACCTCATCAGATATAAGTGATCCTTCCACACCTAG-----
    | ||| ||   || |      |  | |  |      || ||| ||  | | ||   |      ||     ||||   ||    | ||||  |  ||||||| |||||||| ||||||||| |||||| |||||||||  ||| ||| |||||||||| ||||| |||||||||||| ||||||||||| ||||||||     
---cttttattttgtttgtacgagaatttctggtaacct-taattcgtttataccttaact--attttttctttcttattgttgaaatgtcatcttctcagttcagCAGCTCCATTTGTTACAACATCCTGTCAAGAATGCTGTTGCAGAGAGGAAGCACACCCGCATCTCATCAGATATGAGTGATCCTTCAACACCTAGGAAAA

upper sequence: GRMZM2G007283_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g02830.1 (Oryza sativa), 3'ss of exon 1
--tagttgttacttcaattctgtagttaagtattatgcttcatatttccttcgttcttttgtttgggggttgaggacttac-atttccttctcatacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATAGGAAGCACAACCGCACCTCATCAGATATAAGTGATCCTTCCACACCTAG
  |   | ||| ||   || |      |  | |  |      || ||| ||  | | ||   |      ||     ||||   ||    | ||||  |  ||||||| |||||||| ||||||||| |||||| |||||||||  ||| ||| |||||||||| ||||| |||||||||||| ||||||||||| ||||||||
cttgccttttattttgtttgtacgagaatttctggtaacct-taattcgtttataccttaact--attttttctttcttattgttgaaatgtcatcttctcagTTCAGCAGCTCCATTTGTTACAACATCCTGTCAAGAATGCTGTTGCAGAGAGGAAGCACACCCGCATCTCATCAGATATGAGTGATCCTTCAACACCTAG

upper sequence: GRMZM2G007283_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g02810.1 (Oryza sativa), 3'ss of exon 1
--tagttgttacttcaattctgtagttaagtattatgcttcatatttccttcgttcttttgtttgggggttgaggacttacatttccttctcatacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATAGGAAGCACAACCGCACCTCATCAGATATAAGTGATCCTTCCACACCTAG
  |  || |||  | |  | | |    |  |||  |       |||   ||  ||   |||  |     ||      |    ||    | ||||  |  ||||||| |||||||| ||||||||| |||||| |||||||||  ||| ||| |||||||| | ||||| |||||||||||| ||||||||||| ||||||||
ttttatttttatcttatatgtatgagaatttatggtaaccttaattcgttt--ttaccttgactattttttctttcttgttgttgaaatgtcatcttctcagTTCAGCAGCTCCATTTGTTACAACATCCTGTCAAGAATGCTGTTGCAGAGAGGAAGCATACCCGCATCTCATCAGATATGAGTGATCCTTCAACACCTAG

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|211183065|gb|FK969622.1|FK969622
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAACGAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGAT
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAAC-AGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGAT
EST: gi|67022281|gb|CO451030.1|CO451030
EST:     AACTGCGGCACGCGGCGA-GAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: AACTGCGGCACGCGG-GAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|148930940|gb|EC873424.2|EC873424
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|78081509|gb|DV509921.1|DV509921
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|148932585|gb|EC876437.2|EC876437
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|211183056|gb|FK969613.1|FK969613
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|149102573|gb|EE188233.2|EE188233
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|211183057|gb|FK969614.1|FK969614
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|71437207|gb|DR818257.1|DR818257
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|71315550|gb|DR794379.1|DR794379
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|211183058|gb|FK969615.1|FK969615
EST:     CAACTGCGGCACG-GGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|78082095|gb|DV510507.1|DV510507
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|149109789|gb|EE293582.2|EE293582
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|211396307|gb|FL093767.1|FL093767
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|149094890|gb|EE180468.2|EE180468
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|211183064|gb|FK969621.1|FK969621
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
EST: gi|149000180|gb|EE037319.2|EE037319
EST:     CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAG                         TTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA
genomic: CAACTGCGGCACGCGGGAGGAGAATGCCGTCGTCGCTGCGCACGCACAAGgtaccctttc ... atacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttcgttcttttgtttgggggttgaggacttacatttccttctcatacttccagTTCAACAGCTCCACTTGTTACAAAATCCTGCCAAGAATGCCATTGGAGATAGGAAGCACAACCGCACCTCATCAGATATAAGTGATCCTTCCACACCTAG
                           gacttac  putative branch site (score: 2)
                                   tttccttctcatactt  CT-rich tract
         ttttgttt  TA-rich tract