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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTTCTTTGGGAAAACACCACTGATCAAGCTCTCTCCAAAGAAAACATGGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTGgtcagtaaatacgtactattcttctaaaattatctctgtttactattgctaaccaatgaccatataaccaatatgtggtgcataatatttttgttcgatg...

Basic information

species Zea mays
transcript GRMZM2G062416_T03
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G062416_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os10g17990.1 (Oryza sativa), 5'ss of exon 6
GTTCTTCTTTGGGAAAACACCACTGATCAAGCTCTCTCCAAAGAAAACATGGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTGgtcagtaaatacgtactattc-----ttctaaaattatctctgtttactattgctaaccaatgaccatataaccaatatgtggtgcataatatttttgttcgatg
 ||||||||||||||||||||  | || |||||||||||||| ||||| ||||| |||||| |||||||||||||||| ||  ||||||||||||||||||| ||||        |||  |     | ||  |||  |    || | |  || || |    ||   |   |  || ||| | || || ||||   || |      
CTTCTTCTTTGGGAAAACACCCTTAATTAAGCTCTCTCCAAAAAAAACTTGGGAGGGCTTTCTAGGTGCATCAGTGACTACCATGCTTTCTGCATTTGTGgttagtagcacttgtctacccatatatccttcaatcgtagaggtct-cagtttctcattgttggtaactaattcagtatctcgttcagaatagaattctga----

upper sequence: GRMZM2G062416_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA10G32660.2 (Glycine max), 5'ss of exon 6
GTTCTTCTTTGGGAAAACACCACTGATCAAGCTCTCTCCAAAGAAAACATGGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTGgtcagtaaatacgtactattcttctaaaattatctctgtttactattgctaaccaatgaccatataaccaatatgtggtgcataatatttttgttcgatg---
 ||||||||||| | ||| ||  |||||||| | |||||||||||||| ||||| || |||||||| ||||| || || ||  |  | ||||||||| |||| || | |     | | |  |  | ||  |  |     ||   ||   |      |      ||  |   |   ||   || |||    ||||| ||||   
TTTCTTCTTTGGAAGAACCCCTTTGATCAAGTTATCTCCAAAGAAAACTTGGGAGGGTTTTATAGGGGCATCTGTTACCACCATCATCTCTGCATTTATGgtgagcagaatttcaatttgttaatcaagatg-caacaattgggatgtttttttggttgggggattgcttgtcattgaatcagaat-cacttgtt-gatgttt

upper sequence: GRMZM2G062416_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA02G46440.1 (Glycine max), 5'ss of exon 6
GTTCTTCTTTGGGAAAACACCACTGATCAAGCTCTCTCCAAAGAAAACATGGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTGgtcagtaaatacgtactattcttctaaaattatctctgtttactat-tgctaaccaatgaccatataaccaatatgtggtgcataatatttttgttcgatg---
 ||||  ||||||| |||||| ||||| ||||| |||||||||||||| |||||||| || || || || || ||  | ||  || || |||||||   ||| || |      | || || ||     | |   | |||     |  |||||| |||  |||||   |  ||  | |    | | | |  ||  ||   ||   
TTTCTATTTTGGGAGAACACCTCTGATAAAGCTTTCTCCAAAGAAAACCTGGGAAGGTTTCATTGGAGCGTCTGTTGCCACTATGATTGCTGCATTCACGgtaagcat---tctgcttttgtttagtcacttcttatgtcaggaaaatgctaagcaactaccatcccaaaaaactttcaaactttacaccttc-tttattgctc

upper sequence: GRMZM2G062416_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA14G02210.1 (Glycine max), 5'ss of exon 4
GTTCTTCTTTGGGAAAACACCACTGATCAAGCTCTCTCCAAAGAAAACATGGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTGgtcagta---------aatacgtactattcttctaaaattatctctg--tttac-tattgctaaccaatg-accatataaccaatatgtggtgcataat----atttttgttcgatg---------------------------------------------------------
 ||||  ||||||| |||||| ||||||||||| ||||||||||||||||||||||| || || || || || ||  | ||  || || ||||||||  ||| || |          | |   ||||   | | ||||   | ||    || ||   ||| | |    |  || | ||      | | |    || ||     | |||   | |||                                                          
TTTCTATTTTGGGAGAACACCTCTGATCAAGCTTTCTCCAAAGAAAACATGGGAAGGTTTCATTGGAGCGTCTGTTGCCACTATGATTGCTGCATTTACGgtaagcatcagtcagtgacatcaactaccatcccaaaaagctttcaaaattcacaccttgtttatagctctactagatcttttgtgtttaactcacaacctccactttaagttgatttaatgatatttttcagtatttttgctttgcatgatgatgtcacttatgtttgtgcag

upper sequence: GRMZM2G062416_T02 (Zea mays), 5'ss of exon 1
lower sequence: AT4G26770.1 (Arabidopsis thaliana), 5'ss of exon 5
GTTCTTCTTTGGGAAAACACCACTGATCAAGCTCTCTCCAAAGAAAACATGGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTGgtcagtaaatacgtactattcttctaaaattatctctgtttactattgctaaccaatgaccatataaccaatatgtggtgcataatatttttgttcgatg-
 ||||  || |||||||| || || |||||| | ||||||||||||||||||||||| || || || ||||||||  ||||  |  | ||||||||| | || | |||     | ||||  ||    | | ||    |||    | | ||  |   ||  |  |  ||  |||  |  |   ||     || || | |   
TTTCTATTTCGGGAAAACTCCGCTCATCAAGTTGTCTCCAAAGAAAACATGGGAAGGTTTCATCGGAGCATCAGTTGCAACTATAATCTCTGCATTTATTgt-aataaccttcttctatcattt---attcattc--gttcgtaact-ctttcttttggtctcaagactgatagattat---tatctgcttcgtacaacag

upper sequence: GRMZM2G062416_T02 (Zea mays), 5'ss of exon 1
lower sequence: AT4G22340.3 (Arabidopsis thaliana), 5'ss of exon 5
GTTCTTCTTTGGGAAAACACCACTGATCAAGCTCTCTCCAAAGAAAACATGGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTGgtcagtaaatacgtactattcttctaaaattatctctgtttactattgctaaccaat-gaccatataaccaatatgtggtgcataatatttttgttcgatg
 ||||||||||| | ||||||  |||||||| | || ||||||||||||||||| || || || || || ||  | || ||| || ||||||||||  |||| ||    |   |  |   ||  |||   ||| | | || || | |  |||   ||  |  || |  |   | | ||  |                    
TTTCTTCTTTGGAAGAACACCGTTGATCAAGTTATCACCAAAGAAAACATGGGAGGGTTTCATTGGAGCTTCTATTACCACAGTGATTTCTGCATTCCTGgtaagct--tgttttatgggctaataagtatatgttttttgacgagtagtaattgattaataatcttgcttgtttttgtag--------------------

upper sequence: GRMZM2G062416_T02 (Zea mays), 5'ss of exon 1
lower sequence: Vv19s0090g01220.t01 (Vitis vinifera), 5'ss of exon 5
GTTCTTCTTTGGGAAAACACCACTGATCAAGCTCTCTCCAAAGAAAACATGGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTGgtcagtaaatacgtact-attcttctaaaat---tatctctgtttactattgctaaccaatgaccatataaccaatatgtggtgcataatatttttgttcgatg
 ||||||||||| ||||| ||  ||||||| |||||||||||||||||||||||||| ||||| || | ||||||  ||||  || | || ||||||||||| ||||  |    ||| | || | | || |   ||| |  | ||    ||     ||     |||     ||  |   |  |   || |  |||  ||     
TTTCTTCTTTGGAAAAACGCCTTTGATCAAACTCTCTCCAAAGAAAACATGGGAAGGTTTTATTGGAGGATCAGTTGCAACTGTGATCTCAGCATTTGTGgtgagtat-tgttcactgactcctttgaagtcgatatttgagcttctccttctgctcctccttccaggcccccgcttccttttatttatttatttaattat---

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|32908945|gb|CF013758.1|CF013758
EST:     GGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTG                         GTTGCTAATTTCATGGGCCATTTCCAGTGGTTAACATGCCCAAGAAAG
genomic: GGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTGgtcagtaaat ... gtattggcagGTTGCTAATTTCATGGGCCATTTCCAGTGGTTAACATGCCCAAGAAAG
EST: gi|24773898|gb|CA409152.1|CA409152
EST:     GGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTG                         GTTGCTAATTTCATGGGCCATTTCCAGTGGTTAACATGCCCAAGAAAG
genomic: GGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTGgtcagtaaat ... gtattggcagGTTGCTAATTTCATGGGCCATTTCCAGTGGTTAACATGCCCAAGAAAG
EST: gi|78074248|gb|DV502682.1|DV502682
EST:     GGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTG                         GTTGCTAATTTCATGGGCCATTTCCAGTGGTTAACATGCCCAAGAAAG
genomic: GGGAAGGCTTTATAGGTGCATCAGTGACAACATTGCTTTCTGCATTTGTGgtcagtaaat ... gtattggcagGTTGCTAATTTCATGGGCCATTTCCAGTGGTTAACATGCCCAAGAAAG