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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaaggctgccaaattacttcaatatacttcagtcctctgatcattagtccagcctgatttacagcgtttgttgtttcaatatattaaatcatatgctgctctttttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG

Basic information

species Zea mays
transcript GRMZM2G421857_T04
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 3'ss of exon 13
gtaagaaggctgccaaattacttcaatatacttcagtcctctgatcatta-gtccagcctgatttacagcgtttgttgtttcaatat-attaaatcatatgctgctctttttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
                                   ||           || |||   | ||||| | |  |||| | |||||| | |  ||||| || |||      || || |||| ||||||||||||| |||||||||||||| || || ||||||||||||||||| |||||||||||||| || ||||||||||| || |||
-----------------------------------gtaaggaagcagctaagtctgtcatgattaataatgtttatcgtttcagtgttgttaaaccacatg------ttcttgtttgtagGTCTTCTGGGGATTAGATAAAAAGCTTGCCCAGAGGAAGCATTTCCCATCAGTGAATTGGCTCATATCTTATTCGAAATATTCTAAG

upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 14
gtaagaaggctgccaaattacttcaatatacttcagtcctctgatcattagtccagcctgatttacagcgtttgttgtttcaatatattaaatcatatgctgctctttttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
              | ||||  ||| |||     |  |||||| | |||  ||     | || ||      |     |||||||  |||   | |  |  |  |   ||  || |||||| ||||||||||| || |||||||| ||||| |||||||| || || ||||| || ||||| ||||| ||||| |||||||| | |
--------------agatta--tcattatgaaatacccctctggttatt--tcttcttttatctatccttctataactttcaattcattttgtaagtttatttttgcttaattggcagGTTTTCTGGGGTTTGGACAAAAAGCTTGCTCAGAGGAAGCACTTTCCTTCTGTAAACTGGCTTATTTCTTATTCAAAATACTCAACG

upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 13
lower sequence: AT1G78900.2 (Arabidopsis thaliana), 3'ss of exon 14
----------------------------------------------------------------------gtaagaaggctgccaaattacttca-atatacttcagtcctctgatcattagtccagcctgatttacagcgtttgttgtttcaatatattaaatcatatgctgctctttttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
                                                                       | |    | ||     |   || | || | |  ||| |   |    |||    ||   |  ||  |  | ||       | | | |   |       || | ||||||| || ||||||||||||||||||| || |||||||| || || || || ||||| || ||||| |||||| | ||||| || || || || || | |
gtgattatttggttcatgtctgcttccctatcttccattgtagattacatagtcgtatatgttggttgagatgaaccagatggtgtttagttttagatctgccgcagactcgta--tatttaagcattttttttctccactttgaaatgcttactcttccattctggttgtttctcttttcttctgcagGTCTTCTGGGGTTTGGACAAAAAGCTTGCCCAGAGAAAACATTTTCCCTCTGTTAATTGGTTGATTTCTTACTCAAAGTATTCAACG

upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 14
gtaagaaggctgccaaattacttcaatatacttcagtcctctgatcattagtccagcctgatttacagcgtttgttgtttcaatatattaaatcatatgctgctctttttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
                 ||   |||  |   | ||    |     ||   || |       ||| ||   | | || |||   |  |    ||   ||  |     | |||||||||||| ||||||||| | || || || || ||||| ||||| |||||||||||||| || ||||| ||||| || || |||||  | | |
---------------tcttgtctcacaaggatgcatgaatgaatacacacgttc---tcattttgcaaactatcttttttggcttcaccttattcaatattatgtatattttttgcagGTTTTCTGGGGTCTGGACAAGAAACTTGCTCAGAGGAAACATTTCCCATCTGTAAACTGGCTTATTTCATACTCAAAATATGCAACG

upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 3'ss of exon 14
gtaagaaggctgccaaattacttcaatatacttcagtcctctgatcattagtccagcctgatttacagcgtttgttgtttcaatatattaaatcatatgctgctcttt--ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
             |  || | |  | |||| || |   ||  ||  ||   |    |    ||||     ||| |  |||    || | || |  ||   | |  |      || ||||||| ||||||||||| || |||||||| ||||| ||||| |||||||||||||| || ||||| ||||| || || || ||||| |  
-------------cccatcattctattataattgaagacttggagtatccatttgactc--ttta----atttctccttttggcat-tcaagttttagttttccataaaaccttgtgcagGTGTTCTGGGGTTTGGACAAAAAGCTTGCTCAGAGGAAACATTTCCCATCTGTAAACTGGCTTATTTCTTACTCTAAGTACTCAACC

upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 13
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 3'ss of exon 14
----------------------------gtaagaaggctgccaaattacttcaatatacttcagtcctctga---tcattagtccagc------ctgatttaca--gcgtttgttgtttcaatatattaaat-catatgctgctctttttttttg-cagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
                            ||   |   |         | ||||  ||   ||  ||  |  |   | |||     |||       ||||    |  || ||| || | |   ||  | |||     ||| |       | |   | ||||| || |||||  | || || ||||| |||||| | || ||||| ||| |||||||||||||||||||||| || || ||| |  ||
gttagtcatttgtgtacttgcactgattgtgctacatcctatcgtcaatttcagaattactcgctcaccgtagatttattgagatagcaaagcattgatcctgaatgcattttttatgtggttacttgaaaaatggatgttaaatgcatgtggagtcagGTGTTTTGGGGACTTGACAAGAAGCTTGCTCAACGTAAACATTTTCCAGCTGTGAATTGGCTCATTTCCTACTCCAAGTACACTCAG

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|32850183|gb|CD989864.1|CD989864
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|32921243|gb|CF026055.1|CF026055
EST:     GTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|67026160|gb|CO454909.1|CO454909
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|32845901|gb|CD985582.1|CD985582
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAACATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|6637071|gb|AW261343.1|AW261343
EST:     GTGGTGATTTTTCAGACCCCGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|8368089|gb|BE051034.1|BE051034
EST:     GTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|32921648|gb|CF026460.1|CF026460
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|211538183|gb|FL123481.1|FL123481
EST:     GTGGKGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTARATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|32846431|gb|CD986112.1|CD986112
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|51592889|gb|CV072035.1|CV072035
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTA
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTA
EST: gi|61118945|gb|DN559906.1|DN559906
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|32846734|gb|CD986415.1|CD986415
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|8368090|gb|BE051035.1|BE051035
EST:     GTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|8665370|gb|BE186186.1|BE186186
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCANTTTCTCCAC
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCA-TTTC-CCA-
EST: gi|40334940|gb|CK369010.1|CK369010
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|19437277|gb|BM953687.1|BM953687
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|22542087|gb|BU092525.1|BU092525
EST:     GGGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|32921742|gb|CF026554.1|CF026554
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|32920116|gb|CF024928.1|CF024928
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|32921546|gb|CF026358.1|CF026358
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|60352649|gb|DN219622.1|DN219622
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCCGCAACCCTCAGTATTGTTCAGgtaagaaggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacagcgtttgttgtttcaatatattaaatcatatgctgctctttttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
                                  tgctgctctttttttt  CT-rich tract
       tttgttgtttcaatat  TA-rich tract