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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttttctcaccatgttatgtgtatttatgtatttgagtacatgacatggctactaagctggagttacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA

Basic information

species Zea mays
transcript GRMZM2G010085_T02
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G010085_T02 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 22
gtatgtttt-tctcaccatgtta---tgtgtatttatgtatttgagtacatgacatggctactaagctggagttacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA
||||| | | ||  ||||| | |   | || |   || | |||    || ||||||| ||| | || ||   | ||||| ||||||||||||||||| || ||||| ||||||||||||||||||||||||||||||||||| ||||| || ||||| ||||||||||||||||| |||||||
gtatgctctatcataccatctcactttctgcacacatttgttttcaaacgtgacatgtctaattagttg---tcacatttcagCTTTGCATGGTGCATAAGCTTGGTTATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGCATGTCGCCTTTGTTCCGATTTGATTGGTTTGTCAAGTCCA

upper sequence: GRMZM2G010085_T02 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 22
gtatgtttttctcaccatgttatgtgta---tttatgtatttgagtacatgacatggctactaagctggagttacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA
||||| |   | ||| ||  |   || |   |||| |    |   |   |  |||    ||  |||| | ||   ||| ||| | ||||||||||||||||| ||||| ||||||||||||||||||||||| ||||| || ||||| |||||||| ||||||||||||||||||||||| |
gtatgctacac-cacaattgttcctgaacaatttaagcccctttcttttttgcattttaac--agcttgtgtc-tattacagTTATGCATGGTGCACAAACTCGGATACGGAAACTGGGATGAACTGAAAGCAGCCTTTCGCATGTCGCCCTTGTTCCGATTTGATTGGTTTGTGAAGTCTA

upper sequence: GRMZM2G010085_T02 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 22
-----------------------------------------gtatgtttttctcaccatgtta-------tgtgtatttatgtattt---gagtacatgacatg-gctactaagctggagttaca--ttccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA
                                           || | ||| |   ||||||        ||| || |   || |||   ||  | |   | || | |      ||  | ||| |  || ||| | || ||| | ||||||||||| ||||| || ||||||||  |||| || || || || ||||| |||||||||||||||||||||||||| |||||  
gtgtgaattttatttccttttgtttttatttttgcccaaattcatttctttttgttcatgttcagttccttgtttagtctggtgttttccgaacagaattcttgtgttgtctgactttacttaaaacttgcagATATGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGTTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC

upper sequence: GRMZM2G010085_T02 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 22
gtatgtttttctcaccatgttatgtgtatttatgtatttgagtacatgacatggctactaagctggagttacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA
|||   |||| |   |    || || ||  |   |   |   |  |||   |    |  ||  ||   | |  || ||| | |||||||||||||||||||| ||||| |||||||||||  | || || || || || |  || |||||||||||||||||||||||||| || ||  
gtacaatttttttttc----taggtctagctccat-catccttctatgggtttctaaaaaaattgctataaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCAGCATTTCGAACATCACCCTTGTTTCGATTTGATTGGTTTGTCAAATCTC

upper sequence: GRMZM2G010085_T02 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 22
--gtatgtttt---tctcaccatgttatgtgtatttatgtatttgagtacatgacatggctact-----------aagctggagttacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA
    |  ||||   |||  | || || | | | ||| |   | |   | ||| |     |||             ||  ||   | |  || ||| | |||||||||||||||||||| ||||| |||||||||||  | || || || || || |  || |||||||||||||||||||||||||| || ||  
gtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatccttctatcggtttctaaaaaaattgctataaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCAGCATTTCGAACATCACCCTTGTTTCGATTTGATTGGTTTGTCAAATCTC

upper sequence: GRMZM2G010085_T02 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 22
-----------------------------------------gtatgtttttctcaccatgtta-------tgtgtatttatgtattt---gagtacatgacatg-gctactaagctggagttaca--ttccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA
                                          ||| | |||     ||||||        ||| || |   || |||   ||  | |   | || | |      ||  | ||| |  || ||| |||| ||| | ||||||||||| ||||| || |||||||| ||||| || || || || ||||| |||||||||||||||||||||||||| |||||  
gtgtgaaatttatttccttttgtttttatttttgcccaaatttatttcttttcgttcatgttcagttccttgtttagtctggtgttttccgaacagaattcttgtgttttctgacttcacttaaaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC

upper sequence: GRMZM2G010085_T02 (Zea mays), 3'ss of exon 14
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 22
-----------------gtatgtttttctcaccatgttatgtgtatttatgtatttgagtacatgacatggctactaagctggagttacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA
                   |  | ||| |    || | ||   ||||  | ||||  | ||    |     |   | | || | | |   |  ||| | |||||||| || |||||||| ||||||||||||||||| || || || || || || |  || ||||||||| | ||||| |||||||| || ||| 
gtatgacatctatttatcaaactctttgttgagatttcattgttattgttttattctaatatgatattgacccgatgaacttgtgat---tatcagATATGCATGGTCCATAAACTTGGGTATGGAAACTGGGATGAGCTAAAGGCAGCGTTTCGGACATCCCCCTTGTTTAGGTTTGACTGGTTTGTAAAATCCC

upper sequence: GRMZM2G010085_T02 (Zea mays), 3'ss of exon 14
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
------------------------gtatgtttttctcaccatgttatgtgtatttatgtatttgagtacatgacatggctactaagctggagttacattcca----gCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA
                        || |||||    ||  |||||  |||| ||| ||| |     |  ||     |  |       ||     | | | ||    | | |||||||| ||||||||||||||||| ||||||||||| ||||| || || || || |  |||||||||||||| |||||||||||||| |||||  
gtgagaattgcaatcatctctctagtttgtttgatacaa-atgttg-gtgtgtttttgtttgacgattgatcttccgagtgtattcatgcctccatacttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC

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|19057932|gb|BM736599.1|BM736599
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         CTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|32943371|gb|CF048190.1|CF048190
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         CTTTGCATGGTGCACAAACTTGGATATGGAAACTGTTATTAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|18648750|gb|BM497569.1|BM497569
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         C-TTGCATGG-GCACAAAC-TGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|5901273|gb|AW042373.1|AW042373
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         CTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|67013537|gb|CO442286.1|CO442286
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         CTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|60342830|gb|DN209803.1|DN209803
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         CTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAA-CT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|87153391|gb|DY398180.1|DY398180
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         CTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|22489820|gb|BU049743.1|BU049743
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         CTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|78022398|gb|DV490785.1|DV490785
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         CTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|7216553|gb|AW562675.1|AW562675
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         CTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|33098069|gb|CF058029.1|CF058029
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         CTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|19855114|gb|BQ060166.1|BQ060166
EST:     CGGCCATATATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         C-TTGCATGG-GCACAAAC-TGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: CGGCCA-AAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|18648751|gb|BM497570.1|BM497570
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATG                         CTTTGCATGG-GCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
EST: gi|5915179|gb|AW052820.1|AW052820
EST:     ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGNCCGCTTTATG                         CTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT
genomic: ACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatgttttt ... tacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtatttatgtatttgagtacatgacatggctactaagctggagttacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA
     ttatgtattt  TA-rich tract