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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaacaaaatctgtgattgattaaaaagagtagactacagagcagccttgttataggttcgagtataactgacacgctgaagtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATTGCTAAAAATGCCGGTGTCAATGGCAGCGTCGTCACTGAGAAG

Basic information

species Zea mays
transcript GRMZM2G095252_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095252_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 11
----------------------------------------------------------------gtaagaacaaaatctgtgattgat-taaaaagagtagactaca---gagcagccttgttataggttcgagtataactgacacgctg-aagtacca----------ttagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATTGCTAAAAATGCCGGTGTCAATGGCAGCGTCGTCACTGAGAAG
                                                                  |||  |    | ||||  || |   |      | |  || |   || || |     | |    ||   | ||| ||||  | || | |||             |||||||||||||||||| |||||||| || ||||||||||| ||||||||||||||||| ||||| ||||| ||||| ||||| || || ||||||
gtttacaaccatgatctactttattcattgtttttgttcgagtgttctataaacctcatctctcaaaagttctgtttttgtgcctgctactatgtatatgggttagaaatgaccatctcgaatttgttgtcctttctaattgacttgttgtatgtattgcttgaactttttagGTTGGAGCTGAAATTGTAAGGAGAGCGCTGAGCTACCCGCTTAAATTGATTGCTAAGAATGCTGGTGTTAATGGAAGCGTTGTTACCGAGAAG

upper sequence: GRMZM2G095252_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT5G56500.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaagaacaaaatctgtgattgattaaaaagagta----gactacagagcagccttgttataggttcgagtataactgacacgctgaagt--accattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATTGCTAAAAATGCCGGTGTCAATGGCAGCGTCGTCACTGAGAAG
|| ||  || ||    ||        | ||   ||    || |   |||    |    |   ||||  |     | |       | |  |  |||   ||||||||||||| || || | ||  ||  ||||||||||||| || || || || || || || ||||||||||||||||| |||| |||||||
gttagtccagaagagttgcacagcagagaaagataacatgaatgaggagtttgccgtctgcgggttataacgccattttacaattcatcttaacctccagGTTGGAGCTGACATTGTTAAGAAAGCATTGAGCTACCCACTGAAGTTAATCGCCAAGAACGCTGGTGTCAATGGCAGCGTTGTCAGTGAGAAG
















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|32837509|gb|CD977187.1|CD977187
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|32932965|gb|CF037777.1|CF037777
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|33092673|gb|CF052667.1|CF052667
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|32934171|gb|CF038983.1|CF038983
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGACCGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|211520114|gb|FL350150.1|FL350150
EST:     AGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: AGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|32931699|gb|CF036511.1|CF036511
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|32935108|gb|CF039920.1|CF039920
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|32931097|gb|CF035909.1|CF035909
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|32836365|gb|CD976043.1|CD976043
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|32935122|gb|CF039934.1|CF039934
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|32838764|gb|CD978445.1|CD978445
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|32930569|gb|CF035381.1|CF035381
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|33097092|gb|CF057052.1|CF057052
EST:     CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGCAGAAGgtaagaacaa ... gtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagagcagccttgttataggttcgagtataactgacacgctgaagtaccattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATTGCTAAAAATGCCGGTGTCAATGGCAGCGTCGTCACTGAGAAG
                              aactgac  putative branch site (score: 2)
           ttgttata  TA-rich tract