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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGGGCCCTGCTGGACCTTCTGGCAATGTTGCAAATTACATGGGACAAATGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtttgtcatgcaaaatcatggacttgctcatttcataacactgtgccatctttattttccttaatttgctggctactctttgaggccttttatatagacc...

Basic information

species Zea mays
transcript GRMZM2G125243_T01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G125243_T02 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os01g59350.2 (Oryza sativa), 5'ss of exon 10
CTTGGGCCCTGCTGGACCTTCTGGCAATGTTGCAAATTACATGGGACAAATGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtttgtcatgcaaaatcatggacttgctcatttcataacactgtgccatctttattttccttaatttgctggctactctttgaggccttttatatagacc-
  | |||||||| ||| ||||||| ||||||||||| ||||||||||||||||| ||||||||||| |||||||| || || || ||||| ||||| |||||   |  |      | |    ||   | ||  | |     |||    ||  |||| | |    |    ||   | ||| |  |||   |    |  ||  
TCTCGGCCCTGCAGGATCTTCTGGTAATGTTGCAAACTACATGGGACAAATGGCAATGGCTATGGGGAAACTTGGTACCCTAGAAAACTTCCTACGGCAGgtaacttgtatttgcttacctcctattttataacctggt-ttgtttgttcaatattgttcgagttggtttgtgcaatctatttggctcatgcattgtactt

upper sequence: GRMZM2G125243_T02 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
-CTTGGGCCCTGCTGGACCTTCTGGCAATGTTGCAAATTACATGGGACAAATGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtttgtcatgcaaaatca--tggacttgctcatttcataacactgtgccatctttattttccttaatttgctggctactctttgaggccttttatatagacc-----------------------------------------------------
 |||||  ||| ||||  | || |||||||| |||||||||||||| |||||||| ||||| ||||| ||||| || || ||||||   ||  |    |||||      | |  | |||  || ||  | ||| ||     || | | |       |  | |  |    | | |  |    |   ||    || ||||  | |                                                     
ACTTGGCTCCT-CTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttcttactcacatgtacgcgatcagtttggttcatttttctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaaataacttagctctgttcatttttgtggtggtcatttgaaag

upper sequence: GRMZM2G125243_T02 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA10G44270.1 (Glycine max), 5'ss of exon 9
-CTTGGGCCCTGCTGGACCTTCTGGCAATGTTGCAAATTACATGGGACAAATGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtttgtcatgcaaaatcatggacttgc--tcatttcataacactgtgccatctttattttccttaatttgctggctactctttgaggccttttatatagacc--------------------------------------------------
 |||||  ||| ||||  | || |||||||| |||||||||||||| |||||||| ||||| ||||| ||||| || || ||||||   ||  |    ||||| ||   | |  | |||      |||  ||| ||    |||   | |       |  | |  |    | | |  |    |   ||    || |||   | |                                                  
ACTTGGCTCCT-CTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGATTCATTAAGCAGgtatgcttttcttactcacatgtgtgcgatcagtttggtacatatttctcaaagaaaatgctctttcatacagcatttcatggcagattattgataacaaacatcactattaaaataacttggctctgtttatttttgtggtcatttgaaag

upper sequence: GRMZM2G125243_T02 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA03G28320.1 (Glycine max), 5'ss of exon 11
CTTGGGCCCTGCTGGACCTTCTGGCAATGTTGCAAATTACATGGGACAAATGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtttgtcatgcaaaatcatggacttgctcatttcataacactgtgccatctttattttccttaatttgctggctactctttgaggccttttatatagacc------
     || |  | ||  | || || ||||| |||||||||||||| |||||||| ||||| |||||||| ||||| || ||||||   ||||| |  |||||     | ||  | |    |   |  |  | |  |  ||   | |||||||| |       |     ||    |  ||||||    | | |  |  |        
GCCCAGCTCATCAGGCTCCTCGGGAAATGTGGCAAATTACATGGGGCAAATGGCTATGGCCATGGGAAAGCTTGGTACACTTGAGGGGTTTCTTCACCAGgt-----acgctcattttccggtctaattctgttttctcaac-ttccatctttttgaaataaagagaactcaggaagctttgaattatctgagtttaatttatatg

upper sequence: GRMZM2G125243_T02 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA15G37220.1 (Glycine max), 5'ss of exon 7
CTTGGGCCCTGCTGGACCTTCTGGCAATGTTGCAAATTACATGGGACAAATGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtttgtcatgcaaaat--catggacttgctcatttcataacactgtgccatctttattttccttaatttgctggctactctttgaggccttttatatagacc
    | | |  ||||  | || || ||||| |||||||||||||| |||||||| ||||| ||||| || || || || |||||    ||  | | ||||||   |  | |    |  ||      | |  ||    |   ||  ||     |   |       ||| |  | |     | ||||   | |  ||||     
ACCTGCCTCATCTGGTTCATCAGGGAATGTGGCAAATTACATGGGTCAAATGGCCATGGCCATGGGTAAGCTAGGGACACTTGAAGGGTTCATTCAACAGgtacttttttctttgttgcacttgtatacaaatagtttgctacattggtgaataagtgaagaagaatcttttagtccagccttgatttccta-atattatt-

upper sequence: GRMZM2G125243_T02 (Zea mays), 5'ss of exon 12
lower sequence: EFJ18699 (Selaginella moellendorffii), 5'ss of exon 2
CTTGGGCCCTGCTGGACCTTCTGGCAATGTTGCAAATTACATGGGACAAATGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtt-tgtcatgcaaaatcatggacttgctcatttcataacactgtgccatctttattttccttaatttgctggctactctttgaggccttttatatagacc
    ||| ||   |||   ||   ||| || || || ||||||||||||||||| ||||| |||||||| || || ||||| ||||||||| | || |||||   |  |  |   ||| |   ||| |||  |  ||||  || || |                                                     
TGCCGGCTCTCTGGGAAACTCCCCCAACGTAGCGAACTACATGGGACAAATGGCCATGGCAATGGGAAAGCTCGGAACTCTCGAGAACTTTGTTCGCCAGgtaacgcgagccgcgatctt--tctttctcgctg-ataattctttggcgcag-------------------------------------------------

upper sequence: GRMZM2G125243_T02 (Zea mays), 5'ss of exon 12
lower sequence: EFJ28227 (Selaginella moellendorffii), 5'ss of exon 7
-CTTGGGCCCTGCTGGACCTTCTGGC-AATGTTGCAAATTACATGGGACAAATGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtttgtcatgcaaaatcatggacttgctcatttcataacactgtgccatctttattttccttaatttgctggctactctttgaggccttttatatagacc
   |||  |||  ||| |  |  | | ||||| || || || |||||||||||||||||||| |||||||| || || || || |||||||||         ||| | || |  |  | ||| |  || |  |||||  |     ||   |||  | |||||||    | |  |                            
GACTGGCTCCT--TGGGCGCTGCGTCGAATGTCGCCAACTATATGGGACAAATGGCGATGGCGATGGGAAAGCTGGGAACGCTCGAGAACTTT---------GTTCGCCAGgtgatgtgatgtatctg-tggtttcacgat----tgttgtctcaactttcctt---ctaccag----------------------------

upper sequence: GRMZM2G125243_T02 (Zea mays), 5'ss of exon 12
lower sequence: EFJ29724 (Selaginella moellendorffii), 5'ss of exon 7
-CTTGGGCCCTGCTGGACCTTCTGGC-AATGTTGCAAATTACATGGGACAAATGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtttgtcatgcaaaatcatggacttgctcatttcataacactgtgccatctttattttccttaatttgctggctactctttgaggccttttatatagacc
   |||  |||  ||| |  |  | | ||||| || || || |||||||||||||||||||| |||||||| || || || || |||||||||         ||| | || |  |  | ||| |  || |  |||||  |     ||  ||||  | |||||||    | |  |                            
GACTGGCTCCT--TGGGCGCTGCGTCGAATGTCGCCAACTATATGGGACAAATGGCGATGGCGATGGGAAAGCTGGGAACGCTCGAGAACTTT---------GTTCGCCAGgtgatgtgatgtatctg-tggtttcaccat----tgttatctcaactttcctt---ctaccag----------------------------

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|32835771|gb|CD975449.1|CD975449
EST:     TGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAG                         GCTGATAATCTACGGCTGCAAACACTTCAACAAATGCAACGCATCTTAACT
genomic: TGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtttgtcatg ... tcatctgcagGCTGATAATCTACGGCTGCAAACACTTCAACAAATGCAACGCATCTTAACT
EST: gi|32929944|gb|CF034756.1|CF034756
EST:     TGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGACCTTTCTACGACAG                         GCTGATAATCTACGGCTGCAAACACTTCAACAAATGCAACGCATCTTAACT
genomic: TGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtttgtcatg ... tcatctgcagGCTGATAATCTACGGCTGCAAACACTTCAACAAATGCAACGCATCTTAACT