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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGTACTTTTACTTTTACCGTAGTACAATGCTCATAATGTAGAATACTGTAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggcttattttctcttaacaattttttttggccttgccgtgagccctacattttccgattcaatcaacctagctgacttagctcattgtgttgtag

Basic information

species Zea mays
transcript GRMZM2G050961_T04
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G050961_T04 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os10g41710.1 (Oryza sativa), 5'ss of exon 5
----------------AATGTACTTTTACTTTTACCGTAGTACAATGCTCATAATGTAGA-ATACTGTAACCAGTTTGC-ACTTGCAGGTTCTCTTCTCAGACATCAATG-CTTATGAGgtaac-tggcttattttctcttaacaattttttttggcct---tgccgtgagccctacattttccgattcaatcaacctagctgacttagctcattgtgttgtag---
                 |  | ||| |    | |  | | |    |   | ||| | | | ||  |||   |  | | | |  | |    ||  | |  | | |       | ||  |||  |  || |   |  |    |||| | | |    ||      | |  ||     |    |||  | | || ||| |  | |   | | |       |||  | |   
GTTCTCTTCTCTGACATAAATGCTTATGAGgtaaatgaattggcttctccctaacggatacattttgtggtctttctcctaagtactccctccgtcccaaaaaaaaggcaacctagaaggggatgtgacccctcctagtataacgaatctgaaaggagggagtacgatgccttttttggtttttgttccagtcatctgaacgctcatggtattgcatgtacttgcag

upper sequence: GRMZM2G050961_T04 (Zea mays), 5'ss of exon 4
lower sequence: Vv15s0021g00830.t01 (Vitis vinifera), 5'ss of exon 6
AATGTACTTTTACTTTTACCGTAGTACAATGCTCATAATGTAGAATACTGTAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggcttattttctcttaacaattttttttggccttgccgtgagccctacattttccgattcaatcaacctagctgacttagctcattgtgttgtag
                                                                      ||||| ||||||||||| |||||||||||||||| |  || | | | |   ||  |  ||| ||    | ||  | |     |  |  |    ||     ||  || ||     |    |   |  | |  
----------------------------------------------------------------------GTTCTTTTCTCAGACATAAATGCTTATGAGgtaaata-ctgactctgtagaaattaagtttattcatatagcacttaatatgatttactagcctttttcaaaggtacctttacaaatggaagttcctatcc
















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|211346163|gb|FL170595.1|FL170595
EST:     TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTTCNTGC-GTGAGTCAG
genomic: TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTT-C-TGCCGTGAGTCAG
EST: gi|211509911|gb|FL437408.1|FL437408
EST:     TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST: gi|113796158|gb|DW913371.1|DW913371
EST:     AGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: AGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST: gi|6342820|gb|AW165644.1|AW165644
EST:     TAACCAGTTTGCACTTGTAGGTTCTCTTCTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGACGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST: gi|211346161|gb|FL170593.1|FL170593
EST:     TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST: gi|113799136|gb|DW919645.1|DW919645
EST:     CTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: CTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST: gi|211346162|gb|FL170594.1|FL170594
EST:     TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC