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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaacaaaatctgcaatcccgtaattcatttgaaagaggatggaggcaacagagcacaaccttgctataggttcaactatggctgacattctgaactgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATTGCTAAAAACGCCGGTGTCAATGGCAGTGTTGTCACTGAGAAG

Basic information

species Zea mays
transcript GRMZM2G083716_T03
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G083716_T03 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 11
--------------------------------------------------------------gtaaaaacaaaatctgcaatcccgtaatt---catttgaaagaggatggaggcaacagagcacaaccttgctataggttcaactatggctgacatt--ctgaactgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATTGCTAAAAACGCCGGTGTCAATGGCAGTGTTGTCACTGAGAAG
                                                                ||||      | |     || |  | |    || ||    || |  ||       ||        |   |     || |  | | |     |||   ||||||    |||||||||||||||||| |||||||| || ||||||||||| ||||||||||||||||| || || ||||| ||||| || ||||| || ||||||
gtttacaaccatgatctactttattcattgtttttgttcgagtgttctataaacctcatctctcaaaagttctgtttttgtgcctgctactatgtatatgggttagaaatgaccatctcgaatttgttgtcctttctaattgacttgttgtatgtattgcttgaact--ttttagGTTGGAGCTGAAATTGTAAGGAGAGCGCTGAGCTACCCGCTTAAATTGATTGCTAAGAATGCTGGTGTTAATGGAAGCGTTGTTACCGAGAAG

upper sequence: GRMZM2G083716_T03 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA15G40110.1 (Glycine max), 3'ss of exon 10
-----------------------gtaaaaacaaaat-ctgcaatcccgtaattcatttgaaagaggatggaggcaacagagcacaaccttgctataggttcaact------atggctgacattctgaactgacatt----------agGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATTGCTAAAAACGCCGGTGTCAATGGCAGTGTTGTCACTGAGAAG
                       |  || ||||  | ||   ||   || ||   ||||     ||     || ||     |  |   ||||| |    ||||||       |||     | |   || |    ||          ||||||||||||| || || |  || || || || |||||  | ||||| ||||| |||||||| ||||||||||| |||||||||| |||||||
gtgagtcatttatttgatatggagagaatacaagtttcttggatgttgtgatatttttgttttgggtgctgggaaatgcttctgactgttgctttcaactcaactcctagcgtggtcatgacttcaaaattgtgtttaattgttgcagGTTGGAGCTGATATTGTGAAAAGAGCTCTTAGTTACCCTTTGAAATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAG

upper sequence: GRMZM2G083716_T03 (Zea mays), 3'ss of exon 10
lower sequence: AT5G56500.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaaaaacaaaatctgcaatcccgtaattcatttgaaagaggatggaggcaacagagcacaaccttgctataggtt-caactatggctgacattctgaactgacatt-agGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATTGCTAAAAACGCCGGTGTCAATGGCAGTGTTGTCACTGAGAAG
|| |   || ||     | |  |  |    |   ||||||  |        |  |||     | |  ||   ||||  |||      | ||| |      | || |  ||||||||||||| || || | ||  ||  ||||||||||||| || || || || || ||||| |||||||||||||| ||||||| |||||||
gttagtccagaag----agttgcacagcaga---gaaagataacatgaatga-ggagtttgccgt--ctgcgggttataacgccattttacaattcatcttaacctccagGTTGGAGCTGACATTGTTAAGAAAGCATTGAGCTACCCACTGAAGTTAATCGCCAAGAACGCTGGTGTCAATGGCAGCGTTGTCAGTGAGAAG

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|110524823|gb|EE029007.1|EE029007
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|78080917|gb|DV509329.1|DV509329
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|148983128|gb|EE029059.2|EE029059
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|149099157|gb|EE185182.2|EE185182
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|33094001|gb|CF053995.1|CF053995
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTGAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|5069818|gb|AI737783.1|AI737783
EST:     GACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: GACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|60342862|gb|DN209835.1|DN209835
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|60395675|gb|DN228545.1|DN228545
EST:     CAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|211360073|gb|FL471663.1|FL471663
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTGAGGAGGGCCCTGAGCTACCCACTTAATTTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|87156784|gb|DY401573.1|DY401573
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAAT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAAT
EST: gi|24934364|gb|CA452582.1|CA452582
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|6601638|gb|AW256034.1|AW256034
EST:     CCATCAAGGAT-C-CTGGAG-ACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTGAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|32837828|gb|CD977506.1|CD977506
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTGAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|60355768|gb|DN222741.1|DN222741
EST:     CAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|5761879|gb|AI966852.1|AI966852
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCCCTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|211500916|gb|FL458285.1|FL458285
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|211268071|gb|FL357474.1|FL357474
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTGAGGAGGGCCCTGAGCTACCCACTTAATTTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|71764883|gb|DR962820.1|DR962820
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|32914512|gb|CF019324.1|CF019324
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTGAGGAGGGCCCTGAGCTACCCTTTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|148961769|gb|EE012546.2|EE012546
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
EST: gi|120480889|gb|EH211078.1|EH211078
EST:     CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAG                         GTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT
genomic: CAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGCAGAAGgtaaaaacaa ... ctgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagcacaaccttgctataggttcaactatggctgacattctgaactgacattagGTTGGAGCTGAAATAGTAAGGAGGGCCCTGAGCTACCCACTTAAATTGATTGCTAAAAACGCCGGTGTCAATGGCAGTGTTGTCACTGAGAAG
                                           aactgac  putative branch site (score: 2)