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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctgctccttccttttagttcagtgttgatccagttttctagtaatctctctctttgtttccattaggctcttatcaacccaccaagtatcttt...

Basic information

species Zea mays
transcript GRMZM2G104017_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os05g01600.2 (Oryza sativa), 5'ss of exon 3
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatg-----acctgctccttccttttagttcagtgttgatccagttttct-agtaatctctctctttgtttccattaggctcttatcaacccaccaagtatcttt
||||||||||||||||||||||| |||||||||||||| ||||| |||||||| || || || || || || || |||||||| |||||||||||||||||||||     ||      ||  |||||| |||| ||  ||    |||| || | | ||     | | || | |   |  |||   ||  ||         ||    
GAGAAGATGACCCAGATTATGTTTGAGACTTTCAATGTCCCTGCAATGTACGTCGCTATCCAGGCCGTGCTTTCCCTCTATGCCAGTGGCCGTACTACTGgtatgtatgaactcatctctgtcttttacttcaatgaggag--ggtttgctcaattatgcacttgtatgatccacctctgctgccatacacttttttttaat----

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA08G19420.1 (Glycine max), 5'ss of exon 3
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctgctccttccttttagttcagtgttgatccagttttctagtaatc-tctctctttgtttccattaggctc-ttatcaacccaccaagtatcttt
|||||||||||||| |||||||| |||||||||||||| ||||||||||| ||||||||||| || ||| |||| || ||||| |||||  | ||||| ||| ||      |  ||  | || | |   |    ||     | |   ||  || | |   ||   ||  ||| |||   ||||      |     | | | |
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTGCCTGCCATGTATGTTGCAATTCAGGCTGTCTTGTCTCTGTATGCCAGTGGAAGAACTACAGgtttgtttctgtgattgatcttggatt--taccaattttactatactgtggtcatgtgatttcaattggattgggccagttatttgaataaatgctgtatgt

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA05G32220.1 (Glycine max), 5'ss of exon 2
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctgctccttccttttagttcagtgttgatccagttttctagtaatctctctctttgtttccattaggctcttatcaacccaccaagtatcttt
|| ||||||||||| || ||||| ||||| |||||||| ||||||||||| || || || || || || || ||  | ||||| ||||| || || |||||| ||       || ||  | | |       || || |  |||| || | |  ||  |||||   |  || |   || | ||||  ||            
GAAAAGATGACCCAAATCATGTTTGAGACCTTCAATGTGCCTGCCATGTATGTGGCCATCCAGGCTGTTCTCTCCTTGTATGCCAGTGGTCGCACAACTGgtttgtatattaccatctgtcttg------attcattc--ttttataatcacatcattctttccctgaatcaa-ttcctttcaaaacag-----------

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA15G05570.1 (Glycine max), 5'ss of exon 3
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctgctccttccttttagttcagtgttgatccagttttctagtaatctctctctttgtttccattaggct--cttatcaacccaccaagtatcttt-
|||||||||||||| |||||||| |||||||||||||| ||||||||||| ||||||||||| || ||| |||| || ||||| ||||| |||||||| ||| ||      |  ||  | || | |   |  | ||  | | | |     |  | |   ||   ||  ||||||    ||||| | |  | ||| |  || | 
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTGCCTGCCATGTATGTTGCAATTCAGGCTGTCTTGTCTCTGTATGCCAGTGGACGTACTACAGgtttgtttctgtgattgatcttggatt--tact-atttactataccgtggacatgtgatttcaattggattaggtcagcttattatctgagcaaattcctgta

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA08G15480.1 (Glycine max), 5'ss of exon 3
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctgctccttccttttagttcagtgttgatccagttttctagtaatctctctctttgtttccattaggctcttatcaacccaccaagtatcttt
|| ||||||||||| || ||||| ||||| |||||||| ||||||||||| || || || || || || || ||  | ||||| ||||| || || |||||| ||     | || ||  | | |       || || |  |||| || | |  |   |||||   |  || |    ||| | || |              
GAAAAGATGACCCAAATCATGTTTGAGACCTTCAATGTGCCTGCCATGTATGTGGCCATCCAGGCTGTTCTCTCCTTGTATGCAAGTGGTCGCACAACTGgtttgtatatcaccatctgtcttg------attcattc--ttttataatcacattgttctttccctgaatcaattccttttaaaacag------------

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA04G39380.2 (Glycine max), 5'ss of exon 3
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctgctccttccttttagttcagtgttgatccagttttctagtaatctctctctttgtttccattaggctcttatcaacccaccaagtatcttt
|| || |||||||| || ||||| ||||| |||||||| ||||||||||| || || || ||||| ||||| || || ||||| ||||| || || |||||| ||   |  |   ||| | |  |||| |  | ||  |||||| |  | |  |   |||||   |  || |    |||    |  ||            
GAAAAAATGACCCAAATCATGTTTGAGACCTTCAATGTGCCTGCCATGTATGTGGCCATCCAAGCTGTCCTCTCCCTATATGCAAGTGGTCGCACAACTGgtttgtatt--tgtatccatctgtttcaat--tcat--agttttgtcatcacattgttctttccctgaatcaaatactttctgaaacag-----------

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 5'ss of exon 3
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacct--gctccttccttttagttcagtgttgatccagttttctagtaatctctctctttgtttccattaggctcttatcaacccaccaagtatcttt
||||||||||| ||||| ||||| ||||| |||||||| ||||||||||| ||||| ||||| || || || || |||||||| ||||| ||||| || |||  |  ||   |||    | |  |  || | |||     |  ||  || |  | | |   |    |     |    |  || ||                 
GAGAAGATGACTCAGATCATGTTTGAGACATTCAATGTCCCTGCCATGTATGTTGCCATTCAGGCCGTTCTTTCTCTCTATGCCAGTGGTCGTACAACCGgttagttcttaactctaaacatccaagtctgagttatattatcttcttacttgtatttacttaaagtcgttctctttttgtaacag----------------

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 5'ss of exon 4
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctgctccttccttttagttcagtgttgatccagttttctagtaatctctctctttgtttccattaggctcttatcaac-ccaccaagtatcttt
|| |||||||| || || ||||| |||||||| ||||| ||||||||||| ||||| ||||| || || || || || ||||| ||||| ||||| ||||||  |   |      || |||| | |  |  ||  | || ||||||     |     | || || |    |  | ||| |    | ||    | ||     
GAAAAGATGACTCAAATCATGTTTGAGACTTTTAATGTGCCTGCCATGTATGTTGCCATTCAGGCTGTTCTTTCTCTATATGCCAGTGGGCGTACAACTGgttcgtattaaaa--tctttttggattggaatt--ttcatttttct----tttctgttgttagtgtagcctgagttctaacttgctcctttgactag----

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 2
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatg-acctgctccttccttttagttcagtgttgatccag--ttttctagtaatctctctctttgtttccatt-aggctcttatcaacccaccaagtatcttt
||||| ||||||||||||||||| ||||| ||||| || ||||||||||| ||||| || ||||| || ||||| || ||||| ||||| ||||| || ||| ||   |    |  | |   | ||  |      || ||     || | ||  | | | | | |||     || |   | || |  | ||   |   ||    
GAGAAAATGACCCAGATTATGTTTGAGACCTTCAACGTACCTGCCATGTATGTTGCTATCCAAGCTGTGCTGTCTCTGTATGCCAGTGGTCGTACAACAGgtttgtgtcaaagcactgcaagttgtagaagcaaaatacaagacctttttgtg-tgtgtgtgtgtgtcattgttcatattattcttgaaccgttagccatt---

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: PP1S372_48V6.1 (Physcomitrella patens), 5'ss of exon 2
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctgctccttccttttagttcagtgttgatccagttttctagtaatctctctctttgtttccattaggctcttat----caacccaccaagtatcttt
||||||||||| ||||| ||||||||||| ||||| || || || |||||||| || || || || || ||||| || || || || || || || || ||  |||   |    |   |  |      |||  |||   ||  |      || |     |  |     |||  |  |  ||    |    |    | |      
GAGAAGATGACGCAGATCATGTTCGAGACGTTCAACGTGCCGGCGATGTACGTGGCGATCCAGGCGGTGCTGTCGCTGTACGCGAGCGGGCGAACGACGGg--tgagtggggagtgagtggtgagggggtggggat--ggtggtggtaggatgtggaggtgggaggtgattgagaacagatgtggcggtgcgtggaatgcag--

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 5'ss of exon 4
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctgctccttccttttagttcagtgttg-atccagttttctagtaatctctctctttgtttccattaggctc---ttatcaacccaccaagtatcttt-----------------------------------------------------
||||||||||| ||||| ||||||||||| ||||| || || || |||||||| || ||||| ||||| |||||||| ||||| ||||| || || || |||  |   ||          | || | | ||  | ||     ||  | |  |      |    || |       | |    |  |  ||     |||  |  |                                                      
GAGAAGATGACGCAGATCATGTTCGAGACGTTCAACGTGCCGGCGATGTACGTGGCCATTCAGGCAGTGCTGTCACTATATGCCAGTGGACGAACGACCGgtgagtgatgggagaaggggtgaggtgaatgcagcatgtgcgttggttgcgaaagtggtggaggtgtgtggagaggtggggtgtttgacatgggaaggtttgtgggtcggggtaagaaactgagagcagttgtggtgatgaatgcaatgcaatgcag

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: EFJ17401 (Selaginella moellendorffii), 5'ss of exon 2
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctgctccttccttttagttcagtgttgatccagttttctagta---atctctctctttgtttccattaggctcttatcaacccaccaagtatcttt-------------------------------------------------
||||||||||||||||| ||||||||||| |||||||| || ||||||||||| || || ||||||||||| |||||||| || ||||| || ||||| ||||||   |  |  |  |  ||  ||  ||  |   | || |   |  |     | ||| |  ||  || | |  |      || |  |  | |  |   | |                                                 
GAGAAGATGACCCAGATCATGTTCGAGACCTTCAATGTCCCGGCCATGTACGTGGCGATCCAAGCAGTCCTTTCACTCTACGCGAGTGGACGCACTACCGgtatggagtttttttatcccttgctt--gttctagacaagatggttgatgcgtgtttcttttcttcgttgcttgcgatagacatgatgcttcaagttggttctacttttgtttttccctctaacacgttgtatgatcgtggtttgtgatcag

upper sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 3
lower sequence: EFJ35077 (Selaginella moellendorffii), 5'ss of exon 2
GAGAAGATGACCCAGATTATGTTCGAGACTTTCAATGTTCCTGCCATGTACGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctgctccttccttttagttcagtgttgatccagt--tttctagtaatctctctctttgtttccattaggctcttatcaacccaccaagtatcttt--------------------------------------------------
||||||||||||||||| ||||||||||| |||||||| || ||||||||||| ||||| ||||||||||| |||||||| || ||||| || ||||| ||||||   |  |  ||    || | |   | | ||     |  ||  |     | ||| |  ||  || | |  |      || |  |  | |  |   | |                                                  
GAGAAGATGACCCAGATCATGTTCGAGACCTTCAATGTCCCGGCCATGTACGTGGCAATCCAAGCAGTCCTTTCACTCTACGCGAGTGGACGCACTACCGgtatggagttttttttttcctttgcttgttctagacaagatggttgatgcgtgtttcttttcttcgttgcttgcgatagacatgatgcttcaagttggttctacttttttttcttctctctaacacgttgtatgatcgtggtttgtgatcag

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|211469314|gb|FL184442.1|FL184442
EST:     CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTG                         GTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
genomic: CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctg ... caatctacagGTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
EST: gi|60358575|gb|DN225548.1|DN225548
EST:     CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTG                         GTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
genomic: CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctg ... caatctacagGTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
EST: gi|211471835|gb|FL184451.1|FL184451
EST:     CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTG                         GTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
genomic: CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctg ... caatctacagGTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
EST: gi|20811269|gb|BQ295747.1|BQ295747
EST:     CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTG                         GTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATT
genomic: CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctg ... caatctacagGTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
EST: gi|463304|gb|T18271.1|T18271
EST:     GCCGTACTACTG                         GTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
genomic: GCCGTACTACTGgtatgacctg ... caatctacagGTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
EST: gi|30087681|gb|CB885887.1|CB885887
EST:     CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTG                         GTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
genomic: CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctg ... caatctacagGTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
EST: gi|29167959|gb|CB411219.1|CB411219
EST:     CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTG                         GTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG
genomic: CGTTGCAATTCAAGCAGTCCTGTCACTCTATGCTAGTGGCCGTACTACTGgtatgacctg ... caatctacagGTATTGTTCTCGATTCTGGTGATGGTGTGAGCCATACTGTGCCCATTTATG