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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactttgtattatgttctgaattagacttcttgagatttacactgcccatctacaactgaaggatgtgtctgcaattgtttgattctcgacggct...

Basic information

species Zea mays
transcript GRMZM2G174644_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g16690.1 (Oryza sativa), 5'ss of exon 3
GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactttgta--ttatgttctgaattagacttcttgagatt-tacactgcccatctacaactgaaggatgtgtctgcaattgtttgattctcgacggct
||||||||||||||| ||||||||  |||||||||||||||||||||||||||| ||||| ||||||||||||||||||||||||||||||||||| |||||||||||| |  |  | |  ||  ||         | || | |  |   ||   | | | ||   | || ||||   | |  |  |||| ||  ||  |  |
GAAGATGATGCACAAGTACATAGGGGCAGATGTTACATCACTTGTGACACTTCCGGTCATCATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAGgtttgtactgttaaactcacatttagagcgcagtagcctgtgttcgtcttctcatcctgtgcattggcagaatgt---tacgttcatttgcttagcgtagtat

upper sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA18G39880.1 (Glycine max), 5'ss of exon 3
-GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactttgtattatgttctgaattagacttct---tgagatttacactgcccatctacaactgaaggatgtgtc--tgcaattgtttgattctcgacggct-------
 ||| |||||||| || ||  | || || ||| | |||||| | ||||||||||| || || |||||||||||||||||||| |||||||||||||| ||||| |||  ||| |||  | | ||| ||| |  ||     | | ||| ||||   | || ||      ||   | ||||  | ||||    |   ||   |    |       
GGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgt--tttatatactttgctgcatttgtttttgctattacattaacacaaactatttag---caaattctctgtcagtacaatctcattggtcataatacattttcaca

upper sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA07G15930.3 (Glycine max), 5'ss of exon 3
GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactttgtattatgttctgaattagacttcttgagatttacactgcccatctacaactgaaggatgtgtctgcaattgtttgattctcgacggct--------------
||| |||||||| || ||  | || || ||| | |||||| | |||||||||||||| || |||||||| |||||||||||||||||||||||||| ||||| ||| || | || | ||  ||| ||| |  ||    |   ||||| |  | |   || | | |   |  | ||||| | |      |  | |   ||               
GAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCAGTTATCATTTTTGAACCAATGACAATGCTTCAGAAAATGGCTGAGgtctgtgctatatactttg--ctgcatttgcttttgcta---ttacattaac-acaaactatttagcaaattttctgccagtacaatctcattggttgcaatatattttcacag

upper sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA15G04210.1 (Glycine max), 5'ss of exon 3
GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtac---tttgtattatgttctgaattagacttcttga-gatttacactgcccatctacaactgaa---ggatgtgtctgcaattgtttgattctcgacggct
|||||||||||||||||| || || |||||||| |||||| | || ||||| ||||| || |||||||| |||||||| ||||||||||||||||| |||||||| ||   | | | |||| || ||  ||       |||   | || |  |     | |  |   | |   |  || |  |  ||||||| ||  || |      
GAAGATGATGCACAAATATATTGGCTCAGATGTAACATCAATGGTAACACTACCAGTTATTATTTTTGAACCAATGACTATGCTTCAGAAAATGGCAGAGgtttgcacagctctattttattttttgtgttttctgctttgttaaattgctttatttgtttgtattggcacttgattgagctttgaattgttcgaa-ctag------

upper sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA11G14770.1 (Glycine max), 5'ss of exon 3
GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgt--actttgtattatgttctgaattagacttcttgagatttacactgcccatctacaactgaaggatgtgtctgcaattgtttgattctcgacggct
|||||||||||| || || || || || ||||| |||||| | |||||||| ||||| || || ||||| |||||||| ||| |||||||||| || ||||| ||   |||||   || ||   |   | |   | | ||| ||||  | || | ||  |        | |  ||  || ||| |                 
GAAGATGATGCAGAAGTATATTGGCTCGGATGTAACATCAATGGTGACACTACCAGTTATTATATTTGAACCAATGACTATGATTCAGAAAATTGCTGAGgtatgctaacttttagttttgccattgttgatgatacctga-atttgtagtgtcaattgattgaatttgaaattgcttgaaatag-----------------

upper sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT5G02100.1 (Arabidopsis thaliana), 5'ss of exon 3
GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtact-ttgtattatgttctgaattagacttcttgagatttacactgcccatctacaactgaaggatgtgtctgcaattgtttgattctcgacggct
|||||||||||| || || ||||| || |||||||||||  | || || ||||| || || |||||||| || ||||||||| | ||||||||||| |||||||||  | ||  ||| |    |  || | |  ||||     ||    |  | ||    |||        || ||| || |||||    ||||  | |  
GAAGATGATGCAGAAGTATATAGGGTCTGATGTTACATCTATGGTTACTCTTCCTGTGATCATTTTTGAACCCATGACAATGTTGCAGAAAATGGCTGAGgtttgtggtcttagattttagattatatgaaagatcttttagcttctggtttctattg--aacatgttttggtttctccatttgttg---tctctgcag--

upper sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT5G59420.1 (Arabidopsis thaliana), 5'ss of exon 3
GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactttgtattatgttctgaattagacttcttgagatttac-actgcccatctacaactgaaggatg-tgtctgcaattgtttgattctcgacggct
|||||||||||| ||||| ||||| || ||| |||| ||| | ||||| ||||| ||  | || |||||||| ||||| ||||| ||||| ||||| |||||| ||  | |  ||    ||||    |    || |    ||||     |     | |  | ||| |  ||    | ||||| | | | |            
GAAGATGATGCAGAAATATATAGGTTCGGATATTACGTCAATGGTGACTCTTCCTGTTGTTATATTTGAGCCTATGACTATGCTCCAGAAGATGGCTGAGgttagtgttatacatctaattct--cctgtgtttgtaagtatttgttgttttttgtgtgta-ctgtattataacatttgcaaatttctcacag---------

upper sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT3G09300.1 (Arabidopsis thaliana), 5'ss of exon 3
GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactttgtattatgttctgaattagacttcttgagatttacactgcccatctacaactgaaggatgtgtctgcaat-tgtttgattctcgacggct
|||||||||||| || ||||||||||| |||||||||||| | ||||| ||||| || || |||||||| |||||||||||||||||||||||||| ||||||||| ||    || |  | ||||  |    |  |   |  | | |  |    | |  ||    | ||||    ||  || || |   ||   |   |  
GAAGATGATGCAGAAGTACATAGGATCTGATGTTACATCAATGGTGACCCTTCCTGTGATTATTTTTGAACCAATGACAATGCTTCAGAAAATGGCGGAGgtttgtgctcatgatcacat-ctga--tgatttgttcctgtctgatatagt---tttgtaatccgatgatgccaatgatatgtgctctgtttctggtag--

upper sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 3
GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactttgtattatgttctgaattagacttcttgagatttacactgcccatctacaactgaaggatgtgtctgcaattgtttg-attctcgacggct
|||||||||||| || || ||||| |||||||| || ||| | ||||||||||||||  | ||||||||||||||||||||||||||||||||||| || || ||| |  | || | |||  | | || ||  | |       || | || |  ||||   |||    |  |||    ||||||      |   ||| |  
GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgccatctagtttgta-taagtttgatgtttatcttggtagattgtc--tcta-gcctgtttcaaatgttgcaaattgtgaatgcttgtgacag--

upper sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv08s0007g00480.t01 (Vitis vinifera), 5'ss of exon 3
GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactttgtattatgttctgaattagacttct-tgagatttacactgcccatc----tacaactgaaggatgtgtctgcaattgtttgattctcg--acggct
||||||||||||||| || ||||| || ||||| |||||| | ||||||||||| || || |||||||||||  |||| || || |||| |||||| ||||||| | | || |  | |||| | || |  | | |  | |  ||    |||| ||      | || ||||  ||  |||    || ||| |||| |  |  || |  
GAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATACTGCAGAGAATGGCAGAGgttttttcatttt--tgtgtt-taaactgtattgcagtaatgttagggctgctcaaggcagttcagctgattga-atgttactaactgtatgatacctgttacag--

upper sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
lower sequence: PP1S148_87V6.1 (Physcomitrella patens), 5'ss of exon 3
GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactttgtattatgttctgaattagacttcttgagatttacactgcccatctacaactgaaggatgtgtctgcaattgtttgattctcgacggct------
||| ||||||||||| |||||||| || ||  |||| ||| | ||||||||||||||||| || |||||||| ||||| | ||||||||| ||||| ||||| |    ||| || | | || ||     | |  |   | ||||    |    ||||   | |  |  |||  ||||| ||   |    |  | |   ||      
GAAAATGATGCACAAGTACATAGGTTCTGACATTACTTCAATGGTGACACTTCCAGTCATCATATTTGAGCCCATGACTACGCTTCAGAAGATGGCTGAGgtat---ttttttacttt-ttttgtgcgtggccgcaaaatatttggctt--taatctttgagtacaaaatgattctgctatccgtgatgttgcaaattctgtatac

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|22491096|gb|BU051019.1|BU051019
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|19351392|gb|BM895924.1|BM895924
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|13150716|gb|BG321038.1|BG321038
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|74244334|gb|DT652248.1|DT652248
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|211271998|gb|FK970181.1|FK970181
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|50328677|gb|CO523803.1|CO523803
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|148954837|gb|EC900310.2|EC900310
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|149078287|gb|EE167049.2|EE167049
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|71326510|gb|DR799932.1|DR799932
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|94475418|gb|EB704376.1|EB704376
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|148995971|gb|EE035219.2|EE035219
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|20507134|gb|BQ279500.1|BQ279500
EST:     TTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|28909493|gb|CB331845.1|CB331845
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATG-AATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|76011657|gb|DT938827.1|DT938827
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|148940242|gb|EC885014.2|EC885014
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|78116426|gb|DV534813.1|DV534813
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|71326507|gb|DR799931.1|DR799931
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
EST: gi|149084040|gb|EE173435.2|EE173435
EST:     TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAG                         TTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA
genomic: TTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactt ... ctgagtgcagTTGATGGAATACTGTGAATTGTTAGACAAAGCAGATGAATGTGAGGATCCA