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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgattctttaacatggtgaccaaatttcattaggacttcccaaatttttccatctcaattatggattgctgttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG

Basic information

species Zea mays
transcript GRMZM2G126190_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g06390.6 (Oryza sativa), 3'ss of exon 3
gtaatgattctttaacatggtgaccaaatttcattaggacttcccaaatttttccatctcaattatggattgctgttcct---tcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
||||| | ||  | |||||||             |  || ||   |||  | | ||  | | | ||| | || || || |    ||||||| |||||||||||||||||||||||||||||||||||||||||||| ||||| ||||||||||||||||||||||||||||| ||||||||||||||
gtaataactcactcacatggt-------------tgagagttttaaaaaatattcactttattcatgaactgttgctcttgatgcagGTATCGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTATGAAGGATATGCCCTTCCTCATGCCATCCTGCGTCTGGACCTTGCTGGGCG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA15G05570.1 (Glycine max), 3'ss of exon 3
-----------gtaatgattcttta-acatggtgaccaaatttcattaggacttcccaaatttttccatc--tcaattatggattgctgttcctt--cagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
             ||   |    || |||||     | |  || |||| |||   |   ||||    ||   |   |  ||   || || |  |   ||||||||||| | || |||||||||||||| |||||||| ||||| || || ||||| ||||| ||||||||||| || || ||  | ||||||||||| ||
attccacacgtacaagagtgggatatacatgcatttctacattaattatgaccagcattatttccttattggtttgtcttgttatgttggtattaaacagGTATTGTGCTTGATTCTGGTGATGGTGTGAGCCACACGGTGCCCATATATGAAGGGTATGCTCTTCCTCATGCAATTCTTCGGTTGGACCTTGCTGGCCG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G19420.1 (Glycine max), 3'ss of exon 3
-----------------gtaatgattctttaacatggtgaccaaatttcattaggact--tcccaaatttttccatctcaattatggattgctgttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
                  ||   ||   ||  ||   | |         |  || | |  | ||  |||||    |||   |||||  |||   ||    ||||||||||| | || |||||||||||||| |||||||| || || || || ||||| ||||| ||||||||||| || || ||  | ||||||||||| ||
acatatacatgagtgggatatacatgtatttccacattaattcctcacgaccagtattatttccttattttcttgtctttgttatg--ttggcattaaa-cagGTATTGTGCTTGATTCTGGTGATGGTGTGAGCCACACAGTTCCCATATATGAAGGGTATGCTCTTCCTCATGCAATTCTTCGGTTGGACCTTGCTGGCCG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 3
gtaatgattctttaacatggtgaccaaatttcattaggacttcccaaatttttccatctcaattatggattgctgttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
    |  |   | | |||  || |   |||   |      |   || ||| |||  || |    ||  ||| || ||    |||||||||| |||||||||||||||||||| || ||||| || |||||||| || || ||||| || || ||||||||||| ||| | || || ||||| ||
--gtttgtatatcaccatc-tgtcttgattcattcttttataatcacattgttctttccctga-atcaattccttttaaaacagGTATTGTATTGGACTCTGGTGATGGTGTGAGTCACACTGTACCAATCTATGAGGGGTATGCACTCCCCCATGCCATCCTTCGTTTGGATCTCGCTGGTCG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G32220.1 (Glycine max), 3'ss of exon 2
gtaatgattctttaacatggtgaccaaatttcattaggacttcccaaatttttccatctcaattatggattgctgttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
    |  |   ||| |||  || |   |||   |      |   || ||  |||  || |    ||  ||| || |     ||||||||||||||||||||||||||||||| || ||||| || |||||||| || || ||||| || || ||||||||||| ||| | || || || || ||
--gtttgtatattaccatc-tgtcttgattcattcttttataatcacatcattctttccctga-atcaattcctttcaaaacagGTATTGTGTTGGACTCTGGTGATGGTGTGAGTCACACTGTACCAATCTATGAGGGGTATGCACTCCCCCATGCCATCCTTCGTTTGGATCTCGCAGGTCG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G39380.2 (Glycine max), 3'ss of exon 3
gtaatgattctttaacatggtgaccaaatttca-ttaggacttcccaaatttttccatctcaattatggattgctgttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
||    |||  |   |||      ||| |   | ||  | | || ||   || |    || ||| |   ||   |  |    |||||||||| ||||||||||| |||||||| || ||||| ||||||||||| || || ||||| || ||||||||||| || ||| | || |||||||| ||
gtttgtatttgtatccatctgtttcaattcatagttttgtcatcacattgttctttccctgaatca--aatactttctgaaacagGTATTGTTTTGGACTCTGGCGATGGTGTTAGTCACACTGTGCCAATCTATGAGGGCTATGCACTCCCTCATGCCATTCTTCGTTTGGATCTTGCTGGCCG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G15520.2 (Glycine max), 3'ss of exon 3
gtaatgattctttaacatggtgaccaaatttcattaggacttcccaaatttttccatctcaattatggattgctgttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
||    | |  ||  |||  || |  ||||   |      |   || ||| ||| |||      ||  | |  | ||   ||||||||||| |||||||||||||||||||| || ||||| ||||||||||| || || ||||| || ||||||||||| || ||| | || |||||||| ||
gtttgtacttatttccatc-tgtcttaattcactcctttgtcttcacattgttctatccttga-atcaaatctttttgaatcagGTATTGTTTTGGACTCTGGTGATGGTGTGAGTCACACTGTGCCAATCTATGAGGGCTATGCACTCCCTCATGCCATTCTCCGTTTGGATCTTGCTGGCCG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT3G18780.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaatgattctttaacatggtgaccaaatttcattaggacttcccaa--atttttccatctcaattatggattgctgttcctt---cagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
           |||  |   |       |||  ||   |||     |  ||| ||  | || |  | || |||    | | ||   ||||||||||| |||| ||||||||||||||    ||||| |||||||||||||| ||||   | ||||||||||||||||| ||||||||||||||||| ||
----------gttagtacattttaggctttttgtttatactcattgatcattatttgaactgagctctg-attatcttccattgaacagGTATTGTGCTGGATTCTGGTGATGGTGTGTCTCACACTGTGCCAATCTACGAGGGTTTCTCTCTTCCTCATGCCATCCTCCGTCTTGACCTTGCTGGACG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 3'ss of exon 3
----gtaatgattctttaacatg-gtgaccaaatttcattaggacttcccaaatttttccatctcaattatggattgctgttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
    ||  | |    | |||||    | |  | ||  ||||   ||||  |  | | |  |  | || |  |   |  | ||    ||||||||||| | || ||||||||||||||    ||||| |||||||||||||| || ||||| ||||||||||| ||||| |||||||| ||||| || ||
gttagttcttaactctaaacatccaagtctgagttatattat--cttcttacttgtatttacttaaagt-cgttctctttttgtaacagGTATTGTGCTCGATTCTGGTGATGGTGTGTCTCACACTGTGCCAATCTACGAGGGGTATGCTCTTCCTCATGCTATCCTTCGTCTTGATCTTGCGGGTCG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT1G49240.1 (Arabidopsis thaliana), 3'ss of exon 3
--------gtaatgattctttaacatggtgaccaaatttcattaggacttcccaa--atttttccatctcaattatggattgctg--ttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
         | || | | |  |  |     || || |||  ||     ||   ||  ||| |  ||| |  || |  |     ||  || ||| ||||||||||||||||||||||||||||||    ||||| ||||| |||||||| ||||   | ||||| ||||| ||||| ||||| ||||||||||| ||
gttagttcattattaatgtcgagaaaatgaacaaagttttgttttctgtttttaatgattatgtcatattgatcacagtgaaatgattttctttagGTATTGTGTTGGACTCTGGTGATGGTGTGTCTCACACTGTGCCTATCTACGAGGGTTTCTCACTTCCACATGCTATCCTCCGTCTCGACCTTGCTGGTCG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 3'ss of exon 4
----gtaatgattctttaacatggtgaccaaatttcattaggacttcccaaattt--ttccatctcaattatggattgctgttccttc-agGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
    ||| | |    ||       ||   || |||||||     || |     ||  |     || | || |   |||||  |    | |||||||||| |||| |||||||||||||| || ||||| |||||||| || ||||||||||| ||||| ||||| ||||| ||||||||||||||||| ||
gttcgtattaaaatctttttggattgg--aattttcatttttcttttctgttgttagtgtagcctgagttctaacttgctcctttgactagGTATTGTGCTGGATTCTGGTGATGGTGTGAGTCACACTGTGCCAATTTATGAAGGTTATGCACTTCCCCATGCTATCCTTCGTCTTGACCTTGCTGGACG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 3'ss of exon 2
---------gtaatgattctttaacat-ggtgac---caaatttcattaggacttcccaaatttttccatctcaattatggattgctgttccttca---gGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
         | | |  ||| | |  || ||| ||   | | | | |||      |||     |||   || |  | |   | ||  || |   | |   |||||||| ||||| |||||||||||||||||||| || ||||||||||| ||||| ||||| ||||| ||||| ||||| ||  | ||||||||||| ||
aaatttcaagaattttttcctcagtattggtaactgccgactatgattttcttatcctgttctttgttatatttactgaagttttttggtgtgtgaaaagGTATTGTCTTGGATTCTGGTGATGGTGTCAGCCATACAGTGCCAATCTATGAAGGATATGCTCTTCCACATGCAATCCTTCGATTAGACCTTGCTGGTCG

upper sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 3'ss of exon 4
------------------------------------------------------------------------gtaatgat-tctttaacatggtgaccaaatttcattaggacttcccaaatttttccatctcaattatggattgctgttcctt-cagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
                                                                        |   ||   | ||| |||||| ||     | |   | ||  |    || |     ||  |    |   || |||  | |  | ||||||| ||| |||||  ||| |||||||| | |||||| |||||||||||||| ||||| || || ||||| |||||  ||||  | ||| | || || ||
gtgagtgatgggagaaggggtgaggtgaatgcagcatgtgcgttggttgcgaaagtggtggaggtgtgtggagaggtggggtgtttgacatgg-gaaggtttgtgggtcggggtaagaaactgagagcagttgtggtgatgaatgcaatgcaatgcagGTATCGTGCTGGACAGTGGAGATGGTGTGACCCACACGGTGCCAATCTACGAGGGTTACGCACTGCCTCACGCCATATTGCGATTAGACTTGGCGGGTCG

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|84977150|gb|DW475572.1|DW475572
EST:     TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GGATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
genomic: TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
EST: gi|28361589|gb|CB239945.1|CB239945
EST:     TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GTATTGTGTTGGACTCTG
genomic: TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTG
EST: gi|29945132|gb|CB815485.1|CB815485
EST:     TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGT
genomic: TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGT
EST: gi|78111213|gb|DV529610.1|DV529610
EST:     TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
genomic: TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
EST: gi|30087420|gb|CB885626.1|CB885626
EST:     TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GTATTGTGTTGGACTCTGGTGATGGAGTCAGCCACACCGTGCCAATCTACG
genomic: TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
EST: gi|5555493|gb|AI881444.1|AI881444
EST:     TGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
genomic: TGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
EST: gi|149106004|gb|EE291648.2|EE291648
EST:     TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
genomic: TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
EST: gi|22542569|gb|BU093007.1|BU093007
EST:     TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
genomic: TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
EST: gi|33091259|gb|CF051253.1|CF051253
EST:     TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GTATTGTGTTGGACTCTGGTGATGGTGTCAG
genomic: TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAG
EST: gi|6952494|gb|AW424562.1|AW424562
EST:     TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GTATTGGGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
genomic: TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
EST: gi|148951113|gb|EC896784.2|EC896784
EST:     TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
genomic: TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
EST: gi|33285526|gb|CF075321.1|CF075321
EST:     TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTG                         GTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG
genomic: TGTCGCCATCCAGGCTGTGCTTTCCCTGTACGCCAGTGGGCGTACAACTGgtaatgattc ... gttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcattaggacttcccaaatttttccatctcaattatggattgctgttccttcagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACCGTGCCAATCTACGAAGGTTATGCCCTTCCTCATGCCATCCTGCGTCTTGACCTTGCTGGGCG
                                           ctgttccttc  CT-rich tract
                aaattttt  TA-rich tract