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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGAGGCATTCAACATCCTCTTCGTGGCCTTTTTTTGAGAAGTTACCTTTCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtactgtacctttacttaatgccatgatatttcttaaccaaactattttgtttagagtttcaatagcatcatgctattttttggacaagagttagcttat...

Basic information

species Zea mays
transcript GRMZM5G844195_T03
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G844195_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 5'ss of exon 4
GCCGAGGCATTCAACATCCTCTTCGTGGCCTTTTTTTGAGAAGTTACCTTTCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtactgtacctttacttaatgccatgatatttcttaaccaaactattttgtttagagtttcaatagcatc----atgctatttt-ttggacaagagttagcttat
| |||||||| ||||||||||||||||| |||||  | ||||| ||||| ||||| |||||| |||||||| |||| ||||||||||| ||||| |||||||| || || |  |    ||||  |   | |  | |   |    |  |    ||  ||||||   | ||     ||| | | || ||  |||| | |||  |   
GTCGAGGCATCCAACATCCTCTTCGTGGGCTTTTCCTAAGAAGCTACCTATCTCAGATAAGCCGAGACAAACTGCCAGATATTGGTTCCGAGTATGAAGGgtaatgcac-tccatgccatgctgtttaaatgttcagtaactgaagataaactaatgtttcatatgtatgtaaaatgttgtcttattctacaaca-ttaatt---

upper sequence: GRMZM5G844195_T03 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA17G37870.1 (Glycine max), 5'ss of exon 5
GCCGAGGCATTCAACATCCTCTTCGTGGCCTTTTTTTGAGAAGTTACCTTTCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtactgtacctttacttaatgccatgatatttcttaaccaaactattttgtttagagtttcaatagcatcatgctattttttggacaagagttagcttat---------
   |     ||||||||||  ||||||| || |||||||| ||||||||||||||| | || | ||| || |||| ||||||||| | ||| || |||| |    |||   ||| ||| |     | |  |  | ||  ||  | |||||  |    | |  ||   |||||  || ||  ||||  |  |||     ||         
---GCTCTGTTCAACATCCAATTCGTGGTCTATTTTTGAGGAGTTACCTTTCTCAAGTCAGTAAAGATAAGTTGCTTGATATTGGCTATGAATATGAAGAGGG-

upper sequence: GRMZM5G844195_T03 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA01G36870.1 (Glycine max), 5'ss of exon 4
GCCGAGGCATTCAACATCCTCTTCGTGGCCTTTTTTTGAGAAGTTACCTTTCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtactgtacctttacttaatgccatga---tatttcttaaccaa-actattttgtttagagtttcaatagcatcatgctattttttggacaagagttagcttat
| ||||||||||| || ||| ||||||| || ||| | |||||||||||||||||| | || || || |||||||| ||||||||||| |||||||||||||     | |   | ||  |||| |       |||| ||  ||  | ||||    || ||| ||   |||  |   | |   |||        | | | ||   
GTCGAGGCATTCAGCACCCTGTTCGTGGACTCTTTCTCAGAAGTTACCTTTCTCAAGTTAGTAGGGATAAATTGCCAGATATTGGTTCAGAGTACGAAGGgtgagtaagcaagattttttgccctctgctcctttcataggcaggattattcctctttgaggtttcttag--ttgagttggatttgaagttttaatgaactg--

upper sequence: GRMZM5G844195_T03 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA11G08390.1 (Glycine max), 5'ss of exon 4
GCCGAGGCATTCAACATCCTCTTCGTGGCCTTTTTTTGAGAAGTTACCTTTCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgt-actgtacctttacttaatgccatgatatttcttaaccaa-actattttgtttagagtttcaatagcatcatgctattttttggacaagagttagcttat----
|||| |||||||| || ||| |||| || || ||| | |||||||||||||||||| | ||||| ||||||||||| ||||||||||| ||||||||||||| | |     ||| |    |||       |||| ||  ||| | ||||    || ||| ||   |||  |   |     |||  |     | | | || |     
GCCGTGGCATTCAGCACCCTGTTCGCGGACTCTTTCTCAGAAGTTACCTTTCTCAAGTTAGCAGGGACAAATTGCCAGATATTGGTTCAGAGTACGAAGGgtgagtaattttttgccctctgctcc----tttcataggcaagattattcctctttgaggtttcttag--ttgagtctgatttgaggtttcaatgaactgagccag

upper sequence: GRMZM5G844195_T03 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA14G40270.1 (Glycine max), 5'ss of exon 4
GCCGAGGCATTCAACATCCTCTTCGTGGCCTTTTTTTGAGAAGTTACCTTTCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtactgtacct-ttacttaat-gccatgatatttcttaaccaaactattttgt-----ttagagtttcaat--agcatcatgctatttt-ttggacaagagttagcttat
   | |   ||||||||||  ||||||| || |||||||| ||||||||||||||| | || | ||| || |||||||||||||| | ||| || |||| |   |     | ||| ||  | |       |||| |      || | | ||||     ||    ||| |||  ||  | |||   || | ||   ||| | ||       
---GTGCTGTTCAACATCCCATTCGTGGTCTATTTTTGAGGAGTTACCTTTCTCAAGTCAGTAAAGATAAGTTGCCTGATATTGGCTATGAATATGAAGAGGGgtaaggttgttatttggttgttgatgaatttatgtttttaaatgtcttgtgcatcttgtcattttaatttagagtaatgtcgttatattctccaacaatt-------

upper sequence: GRMZM5G844195_T03 (Zea mays), 5'ss of exon 4
lower sequence: AT2G17790.1 (Arabidopsis thaliana), 5'ss of exon 4
GCCGAGGCATTCAACATCCTCTTCGTGGCCTTTTTTTGAGAAGTTACCTTTCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtactgtacctttac-ttaatgccatgatatttcttaaccaaactattttgtttagagtt-tcaatagca-tcatgctatttt-ttggacaagagt---tagcttat----------------------------------------------------------------------------------
|||| || ||||| |||||||| ||||| || || || |||||||||||| | || || ||  |||| ||||| ||||| |||||||||||||| ||||||||  | |  |  ||  || ||    | |  ||| || |         |    | | ||| |   | |   | |   ||| || || |||||   |   ||| || |                                                                                  
GCCGTGGGATTCAGCATCCTCTACGTGGTCTCTTCTTAAGAAGTTACCTTGCGCAGATTAGTCGAGATAAATTACCTGACATTGGTTCTGAGTATGAAGGgtaa-gcatgtagacactattgttgggtttcttcatagcagctgggactcccatggggttcttgcttgtgcttaaattatcttcttagacaaagatccctagtttctttcgacttcatatagaatgttggctattaattaaaatcattttgattcatctagttggtgactcgttttcaaatctctacag

upper sequence: GRMZM5G844195_T03 (Zea mays), 5'ss of exon 4
lower sequence: AT1G75850.1 (Arabidopsis thaliana), 5'ss of exon 4
GCCGAGGCATTCAACATCCTCTTCGTGGCCTTTTTTTGAGAAGTTACCTTTCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtac-tgtacctttacttaatgccatgatatttcttaaccaaactattttgtttagagtttcaatagcatcatgctattttttggacaagagttagcttat
| |||||  ||||||||||| |||||||||| |||||||| ||||| ||  ||||| | ||||| || || || ||||| ||||| || || ||||||||||   | | |  || | |  |  ||||| ||||  | | |    | |||  ||    |  |    | | || ||                           
GTCGAGGTGTTCAACATCCTATTCGTGGCCTCTTTTTGAGGAGTTATCTCGCTCAAGTGAGCAGGGATAAGTTACCTGAGATTGGCTCAGACTACGAAGGgtgggtttgctctttcgttttttcatgagatttggttagctgtttgtttgtttactcgccttgcgatcttcttgtag------------------------

upper sequence: GRMZM5G844195_T03 (Zea mays), 5'ss of exon 4
lower sequence: Vv18s0001g14680.t01 (Vitis vinifera), 5'ss of exon 4
GCCGAGGCATTCAACATCCTCTTCGTGGCCTTTTTTTGAGAAGTTACCTTTCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtactg---tacctttacttaatgccatgatatttctt--aaccaaactattttgtttagagtttcaatagcatcatgctattttttggacaagagttagcttat
|||| || |||||||||||| | ||||| ||||| || |||||||||||||||||| | || ||||| ||||| ||||| ||||| ||||| || ||||||||  |   || ||    |   |  | | |  |||| |  ||    |    ||  | |    | |  ||||  |||   |  | | ||          | ||   
GCCGTGGTATTCAACATCCTATACGTGGACTTTTCTTAAGAAGTTACCTTTCTCAAGTCAGTAGAGATAAATTACCTGACATTGGCTCTGACTATGAAGGgtaaggagataactcatttatgtttctttacttttccttaaagtggatctcttcatgttagttgttgatagtttcaaatt--tgtgtgtttgtataccatct---

upper sequence: GRMZM5G844195_T03 (Zea mays), 5'ss of exon 4
lower sequence: Vv04s0023g03870.t01 (Vitis vinifera), 5'ss of exon 4
GCCGAGGCATTCAACATCCTCTTCGTGGCCTTTTTTTGAGAAGTTACCTTTCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtactgtacctttacttaatgccatgatatttcttaaccaaactattttgtttagagtt----tcaatagc-----atcatgct-attttttggacaagagttagcttat
|||| ||||| ||||||||| | |||||||| ||  | || ||||||||||||||| | || || || ||| | ||||||||||||||||| || ||||||||    |   | | ||  ||   |  | || | |    |   ||| | ||   |||||    |   | ||      | |  || | ||| |||| |  |||        
GCCGTGGCATCCAACATCCTGTACGTGGCCTCTTCCTAAGGAGTTACCTTTCTCAAGTCAGTAGGGATAAACTACCTGATATTGGTTCTGAATATGAAGGgta--agaaaatcaattggtgaatttgtgttgcattttgattttatatagtagggagttcatttttgtggctgaaagtaaaactcagtttctggagaccagt--------

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|148965445|gb|EE016251.2|EE016251
EST:     TCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGG                         CGATGTGGAAAATATTAACGATGCGGTTGAAT
genomic: TCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtactgtacc ... aatcatgcagCGATGTGGAAAATATTAACGATGCGGTTGAAT