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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactcacaatgctgactacttggtgttctacatacatacacacgcatgggccattataacatcaattctgtttgagtaactagagcccctccatctttacttgcatagtggctatgactatttctttctgattgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATGGCCTTTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAG

Basic information

species Zea mays
transcript GRMZM2G133959_T01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133959_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os01g72870.1 (Oryza sativa), 3'ss of exon 12
gtaactcacaatgctg-actac-ttggtgtt-ctacatacatacacacgcatgggc-cattataacat-caattctgtttgagtaac-tagagcccctc-catctttacttgcatagtggctatgactatttctttctgattgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATGGCCTTTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAG
||   |     | |   || |  ||||  || |||  || |  |||| |  |   | || || |  |  ||| | |     | |||| | |||||  || |   ||||| ||  |||   || |   ||  | |||   | |||| |||||||  |||||||||| ||||||| ||||||||| ||| || ||||| | || || ||| |||| | |||||| ||||||||||| || ||  | ||||| |
gtggttttttttcccccacaatgttggcattactatttaaaagcacaagagtatactcagtagagtagacaactttac--aactaacatggagccattctccgttttacctgtctag---cttttcttaactatttt--aatgcattccagCTCTCTGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATTGCATTTCTGTTTGATGTGGACGATCACTGGGGTCCGCTTGCACACTTGG
















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|12058307|gb|BF729165.2|BF729165
EST:     CAGAGTTCCAAAAG                         CTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
genomic: CAGAGTTCCAAAAGgtaactcaca ... tgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
EST: gi|71445212|gb|DR826262.1|DR826262
EST:     ACAACACAATGCGCAATGTCCTTTTCATGGCAATGACAGAGTTCCAAAAG                         CTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
genomic: ACAACACAATGCGCAATGTCCTTTTCATGGCAATGACAGAGTTCCAAAAGgtaactcaca ... tgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
EST: gi|78179633|gb|DV550006.1|DV550006
EST:     CAGAGTTCCAAAAG                         CTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
genomic: CAGAGTTCCAAAAGgtaactcaca ... tgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
EST: gi|211416883|gb|FL440253.1|FL440253
EST:     ACAACACAATGCGCAATGTCCTTTTCATGGCAATGACAGAGTTCCAAAAG                         CTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
genomic: ACAACACAATGCGCAATGTCCTTTTCATGGCAATGACAGAGTTCCAAAAGgtaactcaca ... tgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
EST: gi|78080386|gb|DV508798.1|DV508798
EST:     ACAACACAATGCGCAATGTCCTTTTCATGGCAATGACAGAGTTCCAAAAG                         CTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
genomic: ACAACACAATGCGCAATGTCCTTTTCATGGCAATGACAGAGTTCCAAAAGgtaactcaca ... tgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
EST: gi|76290046|gb|DV029614.1|DV029614
EST:     ACAACACAATGCGCAATGTCCTTTTCATGGCAATGACAGAGTTCCAAAAG                         CTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
genomic: ACAACACAATGCGCAATGTCCTTTTCATGGCAATGACAGAGTTCCAAAAGgtaactcaca ... tgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
EST: gi|71431548|gb|DR812598.1|DR812598
EST:     ACAACACAATGCGCAATGTCCTTTTCATGGCAATGACAGAGTTCCAAAAG                         CTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
genomic: ACAACACAATGCGCAATGTCCTTTTCATGGCAATGACAGAGTTCCAAAAGgtaactcaca ... tgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
EST: gi|9954002|gb|BE640600.1|BE640600
EST:     CAGAGTTCCAAAAG                         CTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG
genomic: CAGAGTTCCAAAAGgtaactcaca ... tgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctccatctttacttgcatagtggctatgactatttctttctgattgcactccagCTTACTGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATGGCCTTTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAG
                                      ttctgat  putative branch site (score: 3)
                               tatttcttt  TA-rich tract