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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagacggctgccaattacttcaatacttcagtcccccaatcattggtccatcctgatttacagtgtttgttgtttcaatatattgttaaatcatgtgctgcttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG

Basic information

species Zea mays
transcript GRMZM2G128877_T03
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G128877_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 3'ss of exon 13
gtaagacggctgccaattacttcaatacttcagtcccccaatcattggtccatcctgatttacagtgtttgttgtttcaatatattgttaaatcatgtgctgcttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
                               |      ||   |   |||  || ||||| | | ||||| | |||||| | |  ||||||| ||  || | ||| |||| ||||||||||||| |||||||||||||| || || ||||||||||||||||| |||||||||||||| || ||||||||||| || |||
-----------------------------gtaaggaagcagcta--agtctgtcatgattaataatgtttatcgtttcagtgt--tgttaaaccacatgtt-cttgtttgtagGTCTTCTGGGGATTAGATAAAAAGCTTGCCCAGAGGAAGCATTTCCCATCAGTGAATTGGCTCATATCTTATTCGAAATATTCTAAG

upper sequence: GRMZM2G128877_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 14
gtaagacggctgccaattacttcaatacttcagtcccccaatcattggtccatcctgatttacagtgtttgttgtttcaatatattgt-taaatcatgtgctgcttttttg-cagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
               ||||     ||     |  || |   | |||  ||     | || ||   |  |     |||||||  ||| | ||| |    |  |||||  ||| ||||| ||||||||||| || |||||||| ||||| |||||||| || || ||||| || ||||| ||||| ||||| |||||||| | |
-------------agattatcattatgaaatacccctctggttatt--tcttcttttatctatccttctataactttcaattcattttgtaagtttatttttgcttaattggcagGTTTTCTGGGGTTTGGACAAAAAGCTTGCTCAGAGGAAGCACTTTCCTTCTGTAAACTGGCTTATTTCTTATTCAAAATACTCAACG

upper sequence: GRMZM2G128877_T02 (Zea mays), 3'ss of exon 13
lower sequence: AT1G78900.2 (Arabidopsis thaliana), 3'ss of exon 14
----------------------------------------------------------------------gtaagacggctgccaattacttcaatactt----cagtccc------ccaatcattggtccatcctgatttacagtgtttgttgtttcaatatattgttaaatcatgtgctgcttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
                                                                       | |  | | ||    ||| ||  | |  |    ||| | |        || ||||  |     |   |||  | || ||  | || || | |   |||   ||     ||  | || ||||||||||||||||||| || |||||||| || || || || ||||| || ||||| |||||| | ||||| || || || || || | |
gtgattatttggttcatgtctgcttccctatcttccattgtagattacatagtcgtatatgttggttgagatgaaccagatggtgtttagttttagatctgccgcagactcgtatatttaagcattttttttctccactttgaaatgcttactcttccattctg--gttgtttct----cttttcttctgcagGTCTTCTGGGGTTTGGACAAAAAGCTTGCCCAGAGAAAACATTTTCCCTCTGTTAATTGGTTGATTTCTTACTCAAAGTATTCAACG

upper sequence: GRMZM2G128877_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 14
gtaagacggctgccaattacttcaatacttcagtcccccaatcattggtccatcctgatttacagtgtttgttgtttcaatatattgttaaatcatgtgctgcttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
             |   |    |||   | ||       |  ||   || | || |  |  | | | | | || |  |   |  || || |||  | ||    |||||||||||| ||||||||| | || || || || ||||| ||||| |||||||||||||| || ||||| ||||| || || |||||  | | |
------------tcttgtctcacaaggatgcatgaatgaatacacacgttc-tcattttgcaaactatcttttttggcttcaccttattcaatattatgtatattttttgcagGTTTTCTGGGGTCTGGACAAGAAACTTGCTCAGAGGAAACATTTCCCATCTGTAAACTGGCTTATTTCATACTCAAAATATGCAACG

upper sequence: GRMZM2G128877_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 3'ss of exon 14
gtaagacggctgccaattacttca--atacttcagtcccccaatcattggtccatcctgatttacagtgtttgttgtttcaatatattgttaaatcatgtgctgcttttt-tgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
            || || | |  |  ||| || |   |    |  ||    ||||     | |  | | | |  | ||   ||  |   || | |  |          || ||||||| ||||||||||| || |||||||| ||||| ||||| |||||||||||||| || ||||| ||||| || || || ||||| |  
------------cccatcattctattataattgaagacttggagtat----ccatttgactctttaatttctccttttggcattcaagttttagttttccataaaaccttgtgcagGTGTTCTGGGGTTTGGACAAAAAGCTTGCTCAGAGGAAACATTTCCCATCTGTAAACTGGCTTATTTCTTACTCTAAGTACTCAACC

upper sequence: GRMZM2G128877_T02 (Zea mays), 3'ss of exon 13
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 3'ss of exon 14
----------------------------gtaagacggc-tgccaattacttcaatact--tcagtcccccaa---tcattggtccatc------ctgatttacagtgtttgttgtttcaatatattgttaaatcatgtgctgcttttttg------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|32929207|gb|CF034019.1|CF034019
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAGgtaagacggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|13149764|gb|BG320086.1|BG320086
EST:     TTACCTCCGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: TTACCTCTGCAACCCTCAGTATTGTTCAGgtaagacggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|32831320|gb|CD970998.1|CD970998
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAGgtaagacggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|32928400|gb|CF033212.1|CF033212
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAGgtaagacggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|74035379|gb|DT535868.1|DT535868
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAGgtaagacggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|211532168|gb|FL123442.1|FL123442
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAGgtaagacggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|211154401|gb|FL123520.1|FL123520
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAGgtaagacggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|33092495|gb|CF052489.1|CF052489
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAGgtaagacggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|32836684|gb|CD976362.1|CD976362
EST:     TTACCTCTGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGTAAGCATTTCCCATCT
genomic: TTACCTCTGCAACCCTCAGTATTGTTCAGgtaagacggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
EST: gi|67025855|gb|CO454604.1|CO454604
EST:     GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAG                         GTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT
genomic: GTGGTGATTTTTCAGACCCTGTTACCTCTGCAACCCTCAGTATTGTTCAGgtaagacggc ... ttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttacagtgtttgttgtttcaatatattgttaaatcatgtgctgcttttttgcagGTCTTCTGGGGTTTAGATAAAAAGCTCGCTCAAAGGAAGCATTTCCCATCTGTGAATTGGCTCATTTCCTATTCGAAATACTCCAAG
                                         ctgctttttt  CT-rich tract
             ttgtttcaatatattg  TA-rich tract