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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtatcattagggttatgtcaaaacagtatctctttggagctgtctccagcgtctttatcttatatccttgagtgcatattggactttgtaatgtattgactaaaattgtcagtttaactaactaaaatttggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAG

Basic information

species Zea mays
transcript GRMZM2G164352_T03
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA20G24790.1 (Glycine max), 3'ss of exon 9
gtttgtatcattagggttatgtcaaaacagtatctctttggagctgtctccagcgtct-ttatcttatatccttgagtgcatattggactttgtaatgtattgactaaaattgtcagtttaactaactaaaatttggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAG
                                             || |      ||   |  |||       || |||||| ||||    || |   |||||   |  | |||   | | |  |||   | ||   |||  ||||   ||||||  | || || || |||||||||||||| |||||||| ||||| ||||| || |||||||| |||||||| ||||| ||||||
---------------------------------------------gtttgtgctctccacttccttgctagtgtgggtgcattttgggaactgca---tattgcacatgactgtttttgttaacaaccttagtt---attgtagGTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAAGAATTTGGACCTGAGTGGGCTATGCAGCACATAATTCCTCAG

upper sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA02G10790.1 (Glycine max), 3'ss of exon 9
gtttgtatcattagggttatgtcaaaacagtatctctttggagctgtctccagcgtctttatcttatatccttgagtgcatatt-ggactttgtaatgtattgactaaaattgtcagtttaactaactaaaatttggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAG
                                             || |   |  |||  ||  ||     |||||   || || |||        | | |  |  |  |||||| ||| | || | |    ||||  ||  ||||   ||| ||| | || || || |||||||| ||||||||||| || ||||| |||||||| |||||||| ||||| || ||||| || |||
---------------------------------------------gtttgtggactctacatgcta---gtttgagcatattttaggaaaccaccttttctacatgactattgtc-gttaacctcattg---tttg--ttgtagGTTCATTCGATCCGTGAGGCAGCTGCTAACAATTTGAAGCGCCTAGCTGAAGAATTTGGTCCTGAGTGGGCTATGCAACACATAATTCCACAG

upper sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA10G42250.1 (Glycine max), 3'ss of exon 9
gtttgtatcattagggttatgtcaaaacagtatctctttggagctgtctccagcgtctttatcttatatccttgagtgcatattggactttgtaatgtattgactaaaattgtcagtttaactaactaaaatttggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAG
                                            |||   |  |   |   |  ||      || |||||| ||||    || |   |||||   |  |  ||   |||   |||| |   |    |||  ||||   ||||||  | || || || |||||||||||||| |||||||| ||||| |||||||| |||||||| |||||||| ||||| ||||||
-----------------------------------------gtttgtgctctacacttccttgcta---gtgtgggtgcattttgggaactgca---tattgcacatgacggt---ttttgttaaccaccttagttattgtagGTTCATTCAATTCGTGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAAGAATTTGGTCCTGAGTGGGCTATGCAGCACATAATTCCTCAG

upper sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 9
lower sequence: AT1G13320.2 (Arabidopsis thaliana), 3'ss of exon 9
gtttgtatcattagggttatgtcaaaacagtatctctttggagctgtctccagcgtctttatctt-atatccttgagtgcatattggactttgtaatgt--attgactaaaattgtcagtttaactaactaaaatttggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAG
                                             ||| |     ||| || ||| ||    |       |||    | |||||  | |  | ||  | |||||     || || ||| || || |||    ||||||    |||||| | || ||||| || |||||  ||||||| ||||| |||||||||||||| || |||||||||||||||||| | ||||||
---------------------------------------------gtccctcat-tctctaccttcattgaatcatccagataaataaatttgtcgtctctactgcttgaaatt-----ttgaaataattataaattg----tcagGTTCACTCAATCCGTGAAGCTGCTGCAAACAATCTGAAGCGTCTTGCTGAAGAGTTTGGTCCTGAATGGGCAATGCAGCATATAGTTCCTCAG

upper sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 9
lower sequence: AT3G25800.1 (Arabidopsis thaliana), 3'ss of exon 8
gtttgtatcattagggttatgtcaaaacagtatctctttggagctgtctccagcg-tctttatcttatatccttgagtgcatattggactttgtaatgtattgactaaaattgtcagtttaacta-actaaaatttggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAG
                         |    | ||||| |    || |  |  |   |  | |  ||||| |  |   |   ||| | | ||  |  | | ||   |    || |   |||   |   |  |   |   |||  ||||    |||||| | |||||||| ||||||||  | ||||| ||||| || || |||||||| || ||||||||||| |||||| | ||||||
-----------------------gtatttctttctctctcttacttttactgggaatgatcagattataccgcttcttatttatagaaattgatttttttttttttttttttttttttttttttttgcggatgctctcatt--agGTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAG

upper sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 9
lower sequence: AT1G25490.1 (Arabidopsis thaliana), 3'ss of exon 9
gtttgtatcattagggttatgtcaaaacagtatctctttggagctgtctccagcgtctttatcttatatccttgagtgcatattggactttgtaatgtattgactaaaattgtcagtttaactaactaaaatttggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAG
                                                         |||| |||  ||| |||| ||  |     | ||| | ||  | |   ||   | |  | |   |||         |     |||||||||  || ||| | || ||||| || |||||| | |||||||| ||||| ||||||||||| || ||||||||||||||  || | || |||
--------------------------------------------------------gtttaccttgaatctttga-tgtttgcataaatttctcattcacttgttattgtagatattgacactgttc-----tcctccttcagGTCTACTCTATCCGCGAAGCTGCAGCAAACAACCTAAAGCGCCTCGCAGAGGAGTTTGGTCCTGAATGGGCAATGCAGCACTTAGTTCCCCAG

upper sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 9
lower sequence: Vv01s0011g03280.t01 (Vitis vinifera), 3'ss of exon 8
gtttgtatcattagggttatgtcaaaacagtatctctttggagctgtctccagcgtctttatcttatatccttgagtgcatattggactttgtaatgtattgactaaaattgtcagtttaactaactaaaatttggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAG
                                | | ||  |||  |  | || | ||||| || |   |   |  ||   |  |  |  |  | ||||| |    ||||  | ||  |      | ||  || | |  | ||||| |  || ||  | |||||||| ||||||||||| ||||||||||||||||| |||||||| || ||||||||||||||  |||| || |||
--------------------------------tattttaagagg-gctttcatcatctttgtcatcgttttctttgtctgtcatctatgtatttatgtagt--tcaaaagggacaaat------attatcatgttg--tgcagGTTTACTCCATTCGTGATGCTGCTGCTAACAACTTAAAGCGCCTTGCAGAAGAATTTGGTCCTGACTGGGCAATGCAGCACTTAATTCCACAG

upper sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 9
lower sequence: Vv17s0000g03870.t01 (Vitis vinifera), 3'ss of exon 10
gtttgtatcattagggttatgtcaaaacagtatctctttggagctgtctccagcgtctttatctta-tatccttgagtgcatattggactttgtaatgtattgactaaaattgtcagtttaactaactaaaatttggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAG
                                           || |  |  || |    |    | || || | |  | | | ||     | |  |  ||    ||| |||       ||| |  ||   || || |||  |||| | ||||||  | ||||| || ||||| ||  |||||||||||||||| || ||||| ||||| |||||||||||||| ||||| || |||
-------------------------------------------ctttacctggcattaacaagaaaatagcccttaaagtaaagtgagtgatatccta-atctcttaatatttgtttcctaattggcttggatgtgaattgtagGTTTATTCAATTCGTGATGCAGCTGCTAATAATGTGAAGCGCCTTGCAGAGGAATTTGGCCCAGATTGGGCAATGCAGCACATAATTCCACAG

upper sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 9
lower sequence: PP1S214_34V6.1 (Physcomitrella patens), 3'ss of exon 8
gtttgtatcattagggttatgtcaaaacagtatctctttggagctgtctccagcgtctttatcttatatccttgagtgcatattggactttgtaatgtattgactaaaattgtcagtttaactaactaaaatttggattt-cagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAG
       |   ||   |    ||||  || | | ||  ||| |  || |    ||   |  || |      |    |   | ||    ||||     |    ||||     || |  | |  | | |    ||||||||   |||| |  || ||| |||| || || || |||||  | ||||| ||||| |||||||||||||| ||||||||| ||||||| || || || |||
------gttcatatattcccatcaag-caatgtttcgatggtg--gtttgtgtcgagatggtcgtcctcaatcagatctcttttcatatttgcttctttagaactagttcagtaatataatttcattcttttttggattaatagGTGTACTCTATCCGAGAGGCAGCTGCCAACAATCTCAAGCGTCTTGCCGAAGAGTTTGGTCCTGAGTGGGCATTGCAGCACATCATTCCACAG

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|87156353|gb|DY401142.1|DY401142
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|32847987|gb|CD987668.1|CD987668
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|32929892|gb|CF034704.1|CF034704
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|87157118|gb|DY401907.1|DY401907
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|26558526|gb|CA830761.1|CA830761
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|113682754|gb|DW833176.1|DW833176
EST:     GGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: GGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|32933390|gb|CF038202.1|CF038202
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|22546073|gb|BU098394.1|BU098394
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|32847664|gb|CD987345.1|CD987345
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|32939366|gb|CF044185.1|CF044185
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|13557744|gb|BG549100.1|BG549100
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|33103273|gb|CF063233.1|CF063233
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|23357737|gb|BU645386.1|BU645386
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|32928724|gb|CF033536.1|CF033536
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|26560084|gb|CA832319.1|CA832319
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|32846843|gb|CD986524.1|CD986524
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|31355734|gb|CD440091.1|CD440091
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|33102660|gb|CF062620.1|CF062620
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
EST: gi|13315895|gb|BG410243.1|BG410243
EST:     TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAG                         GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA
genomic: TTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatca ... tggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtaatgtattgactaaaattgtcagtttaactaactaaaatttggatttcagGTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAG
                            tttaactaactaaaat  TA-rich tract