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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCATTTGGGTCTGCACTTGAATTTGTTTGGTCAACTGATGGAGAATATGCCATCAGAGAAAGCACCTCAAGGATAAAGATTTACAGTAAAAATTTCCAGgtttgtttcaatataacatattccccttctccctggtacaatgttttgtttagttatatctataccgctgtaggcctgtctctaacaaacacctgtaggg...

Basic information

species Zea mays
transcript GRMZM2G124886_T01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G124886_T02 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os02g11840.1 (Oryza sativa), 5'ss of exon 3
ATCATTTGGGTCTGCACTTGAATTTGTTTGGTCAACTGATGGAGAATATGCCATCAGAGAAAGCACCTCAAGGATAAAGATTTACAGTAAAAATTTCCAGgtttgtttcaatataacatattccccttctccctggtacaatgttttgtttagttatatctataccgctgtaggcctgtctctaacaaacacctgtaggg-------
|||||| |||||||||||||||||||||||||||  |||||||||||||||  ||||||||||||| || ||||||||||| ||||||||||||||||||||||||   |  |       |  |||||||      ||   |  |   |     ||    |    |  || |    |||     | ||| |  | | |||       
ATCATTCGGGTCTGCACTTGAATTTGTTTGGTCAGTTGATGGAGAATATGCTGTCAGAGAAAGCACGTCGAGGATAAAGATATACAGTAAAAATTTCCAGgtttgtactaccac------tgtcccttcttttaattatctttgtacatcagagtaggggtccttcaatgcaa-tgtgtgggctagaaaaatttattgggtgtgcac

upper sequence: GRMZM2G124886_T02 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 12
ATCATTTGGGTCTGCACTTGAATTTGTTTGGTCAACTGATGGAGAATATGCCATCAGAGAAAGCACCTCAAGGATAAAGATTTACAGTAAAAATTTCCAGgtttgtttcaatataacatattccccttctccctggtacaatgttttgtttagttatatctataccgctgtag-gcctgtctctaacaaacacctgtaggg----
|||||| |||||||||||||||||||||||||||  |||||||||||| ||  |||||||||||||||| ||||||||||| ||||||||||||||||||||||||       |  |   | ||||||||      ||   |  |   |     ||    |    |  || |  |  ||   |||  |||     |||||     
ATCATTCGGGTCTGCACTTGAATTTGTTTGGTCACTTGATGGAGAATACGCTGTCAGAGAAAGCACCTCGAGGATAAAGATATACAGTAAAAATTTCCAGgtttgtac-----tgcccactgccccttcttttaattatcgttgtacatcagagtaggggtccttcaatgcaatgtgtggggctagaaaaatttagtaggtgtgc

upper sequence: GRMZM2G124886_T02 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 12
ATCATTTGGGTCTGCACTTGAATTTGTTTGGTCAACTGATGGAGAATATGCCATCAGAGAAAGCACCTCAAGGATAAAGATTTACAGTAAAAATTTCCAGgtttgtttcaatataacatattccccttctccctggtacaatgttttgtttagttatatctataccgctgtaggcctgtctctaacaaacacctgtaggg----
 |||||||| || ||||| ||||||||||||||  |||| |||||||||||  |||||||||| || |||| ||| || |||| ||| ||||||||||||||||||     | ||| |  ||    | ||| ||  |    ||   | ||  ||| | | | ||  |    |   |    |||  | |   | |  | ||    
GTCATTTGGTTCAGCACTGGAATTTGTTTGGTCTTCTGAGGGAGAATATGCTGTCAGAGAAAGTACATCAAAGATTAAAATTTTCAGCAAAAATTTCCAGgtttgtacttttttaaaaactttgtttcctctctaatctcgtgcaatctt--gttctgtgtgtaatgaaccaa--caagttcttgctatttcttaaaaggaaaa

upper sequence: GRMZM2G124886_T02 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 12
ATCATTTGGGTCTGCACTTGAATTTGTTTGGTCAACTGATGGAGAATATGCCATCAGAGAAAGCACCTCAAGGATAAAGATTTACAGTAAAAATTTCCAGgtttgtttcaatataacatattccccttctccctggtacaatgttttgtttagttatatctataccgctgtaggcctgtctctaacaaacacctgtaggg----
 |||||||| || ||||| ||||||||||||||  |||| |||||||||||  |||||||||| || |||| ||| || |||| ||| ||||||||||||||||||     | |   |  |||   | ||| ||  |    ||| |  | | ||| | | | ||  |    |   |    |||  | |   | |  | ||    
GTCATTTGGTTCAGCACTGGAATTTGTTTGGTCTTCTGAGGGAGAATATGCTGTCAGAGAAAGTACATCAAAGATTAAAATTTTCAGCAAAAATTTCCAGgtttgtacttttttttaaacttcatttcctctctaatct--tgtgtgatcttgttctttgtgtaatgaaccaa--caagttcttgctatttcttaaaaggaaaa

upper sequence: GRMZM2G124886_T02 (Zea mays), 5'ss of exon 12
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 16
ATCATTTGGGTCTGCACTTGAATTTGTTTGGTCAACTGATGGAGAATATGCCATCAGAGAAAGCACCTCAAGGATAAAGATTTACAGTAAAAATTTCCAGgtttgt--ttcaatataacatattccccttctccctggta-----caatgttttgtttagttatatct-ataccgctgtaggcctgtctctaacaaacacctgtaggg---------------
 |||||||| ||||| || ||||||||||||||| ||||||| ||  ||||  |||| |||||| |  ||| ||| ||||| | ||| || |||||||||||||||  |||  | |  ||  ||||  |||   ||| |       || | |||  ||  || | ||| || | | | |  |     | |||||  |  |   ||                  
GTCATTTGGCTCTGCGCTAGAATTTGTTTGGTCATCTGATGGGGAGCATGCTGTCAGGGAAAGCTCGACAAAGATCAAGATCTTCAGCAAGAATTTCCAGgtttgtaattccttttggcacgttccttttccgactgattaactctaaagcttttgttttttgtgtcttattctgttatctgaaatacactaacctatgctgatacccttgtttaatttgcag

upper sequence: GRMZM2G124886_T02 (Zea mays), 5'ss of exon 12
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 12
ATCATTTGGGTCTGCACTTGAATTTGTTTGGTCAACTGATGGAGAATATGCCATCAGAGAAAGCACCTCAAGGATAAAGATTTACAGTAAAAATTTCCAGgtttgtt----tcaatataacat-----attccccttctccctggtacaatgttttgtttagttatatct---atacc-gctgtaggcctgtctctaacaaacac-ctgtaggg--------------------
||| ||||||||||  || ||||||||||||||| |||| || |||| |||  | ||||||||| | |||| ||||||||| | ||||||||||||||||||||| |    ||| |||  | |     || |   ||       |||  ||  |  | ||    | ||     || |  ||  |||      || | ||   |    | ||                       
ATCTTTTGGGTCTGGCCTGGAATTTGTTTGGTCATCTGAGGGGGAATGTGCGGTTAGAGAAAGCTCATCAAAGATAAAGATATTCAGTAAAAATTTCCAGgtttgctattctcattatggccttactcatactattttgttggagtatgattctagggttgaagaaattgcagatgcttgcaatagagacagctattactggcttattatattaataaaaggtggtgttttcag

upper sequence: GRMZM2G124886_T02 (Zea mays), 5'ss of exon 12
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 12
ATCATTTGGGTCTGCACTTGAATTTGTTTGGTCAACTGATGGAGAATATGCCATCAGAGAAAGCACCTCAAGGATAAAGATTTACAGTAAAAATTTCCAGgtttgtttcaatataacatattccccttctccctggt-acaat-gttttgtttagttatatctataccgctgtaggcctgtctcta-acaaacacctgtaggg---
 || ||||| || ||| | |||||||| |||||| | ||||| ||||||||  |||||||||| || |||| | | ||||||| |||||| ||||||||||||||| ||       | |  |    ||||| ||| | | ||| | || | |    ||||| ||||    || | |  ||| | |       |  ||| |      
GTCTTTTGGTTCGGCATTGGAATTTGTATGGTCATCAGATGGTGAATATGCTGTCAGAGAAAGTACATCAAAGGTTAAGATTTTCAGTAAGAATTTCCAGgtttgtgtcc------cctcctttgtttctctctgatgagaatagattaggtgcaatatatatatatatatgcatgtgtgtgtgtgtgtgtgctgctgaaaacatt

upper sequence: GRMZM2G124886_T02 (Zea mays), 5'ss of exon 12
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 12
ATCATTTGGGTCTGCACTTGAATTTGTTTGGTCAACTGATGGAGAATATGCCATCAGAGAAAGCACCTCAAGGATAAAGATTTACAGTAAAAATTTCCAGgtttg-----tttcaatataacatattccccttctccctggtacaatgttttgtttagttatatctataccgctgtaggcctgtctctaacaaacacctgtaggg
||||||||| || || || ||||||||||||||| | |||| |||||||||  | || ||||| || |||||||| ||||||| ||| ||||  ||||||||||      ||||||  |      |  | |  ||   || |      |||| |  |   | ||    |  |||       |||  | ||        | |    
ATCATTTGGCTCAGCGCTGGAATTTGTTTGGTCATCAGATGCAGAATATGCTGTGAGGGAAAGTACATCAAGGATTAAGATTTTCAGCAAAACATTCCAGgttttgatcctttcaaagtttagattctcacgacttattgatgggggcttttctccaagcaaattagcaatgcttc--ttttgttgcaaagttgtttatctt---

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|31355222|gb|CD439579.1|CD439579
EST:     CCATCAGAGAAAGCACCTCAAGGATAAAGATTTATAGTAAAAATTTCCAG                         GAGAGGAAAAGTATAAGACCATCATTTTCGGTTGAACGGATATTTGGTGGT
genomic: CCATCAGAGAAAGCACCTCAAGGATAAAGATTTACAGTAAAAATTTCCAGgtttgtttca ... gtctttccagGAGAGGAAAAGTATAAGACCATCATTTTCGGTTGAACGGATATTTGGTGGT