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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagggtactcttcacctcttccattcccatcagcgcgccgtcctcgcatcacatccatccctctcgtcttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCACCAACATCCTCGAGAAGATCTGCCAGTATTTCTATTGGTCGCTCCATTA

Basic information

species Zea mays
transcript GRMZM2G059282_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G059282_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g48030.1 (Oryza sativa), 3'ss of exon 1
gtagggtactcttcacctcttccattcccatcagcgcgccgtcctcgcatcaca---------------tccatccctctcgtcttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCACCAACATCCTCGAGAAGATCTGCCAGTATTTCTATTGGTCGCTCCATTA
||  |   |  | | | |||  |  ||| ||  ||    | | |||  | |  |               |||| |     |   | |  ||||||||||||||| ||||||||| ||||||||||  | ||||| ||||||  ||||  |||||||||||||||||||||||| ||||| ||||||||||| ||
gttcgtctccttccccatctatcgatccgattcgctttgctttctcaaaccctagattgccttgaattatccaccaaatccaaatccaacacagGCGGCTTCTCCGAGACGCGCGAGGGCGAGGTTAGGTTCCCCGAGATCAGCACCCCCATCCTCGAGAAGATCTGCCAGTACTTCTACTGGTCGCTCCACTA

upper sequence: GRMZM2G059282_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv06s0004g05560.t01 (Vitis vinifera), 3'ss of exon 1
-----------gtagggtactcttcacctcttccattcccatcagcgcgccgtcctcgcatcacatcca---tccctctcgtcttcc-------ccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCACCAACATCCTCGAGAAGATCTGCCAGTATTTCTATTGGTCGCTCCATTA
            | |  || |  ||     |||| || | | ||    |  ||       |           ||   || |  ||         |  ||||  ||||  | || | |   || || || |||   ||||| |||||   ||||| ||| || ||||||||||||||||||||||| ||||| || || | 
tatatgaaattttggtttatttgtcttaatttcctttgcaaccaaacggttgtttggaatttgggagtgagttctgactaggttttttggtcggcttcagGGAGCTTTGCGGAAAGGGAACATGGAGAAGTCACTTTCCCGGAGATAAGCACCACCATTCTTGAGAAGATCTGCCAGTATTTCTACTGGTCTCTTCAATT
















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|211141709|gb|FL287346.1|FL287346
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|13490768|gb|BG517532.1|BG517532
EST:     AAGGCCGCCATGGTCTCCAATATTCTTTCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: AAGGCCGCCATGGTCTCCAACA-CCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|32937826|gb|CF042645.1|CF042645
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|61119394|gb|DN560355.1|DN560355
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GTGGCTTTTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|32938012|gb|CF042831.1|CF042831
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|211111068|gb|FL388616.1|FL388616
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|211214239|gb|FL370034.1|FL370034
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|211163296|gb|FL418729.1|FL418729
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|9461612|gb|BE453818.1|BE453818
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|211140277|gb|FL369583.1|FL369583
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|211491482|gb|FL425975.1|FL425975
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|7958448|gb|AW862750.1|AW862750
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|211431958|gb|FL418483.1|FL418483
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|211104586|gb|FL031932.1|FL031932
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|211468741|gb|FL385438.1|FL385438
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAKGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
EST: gi|45846861|gb|CN070804.1|CN070804
EST:     GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAG                         GCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA
genomic: GAAGGCCGCCATGGTCTCCAACACCCTCCGCAACATGCTCACATCCCCAGgtagggtact ... ttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcccatcagcgcgccgtcctcgcatcacatccatccctctcgtcttccccacagGCGGCTTCTCTGAGACGCGCCAGGGCGAGGTCCGCTTCCCAGAGATCCCCACCAACATCCTCGAGAAGATCTGCCAGTATTTCTATTGGTCGCTCCATTA
                            catccatccctctcgt  CT-rich tract