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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAAGCATGGAGGGGAAACCTTATGGGTATCACAATATGATATTTAGCTGGATTGATACCATCAGTGATAATTATCCACCACCATTAGATGCTCATGTGgtatgattctacatgttcaactttgaagatcactttactgctaaacctgtttatatatgcgttgcatatcttgccctgtgtgttactgtagcttagatat...

Basic information

species Zea mays
transcript GRMZM2G139374_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139374_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os01g58114.2 (Oryza sativa), 5'ss of exon 4
AAAAAGCATGGAGGGGAAACCTTATGGGTATCACAATATGATATTTAGCTGGATTGATACCATCAGTGATAATTATCCACCACCATTAGATGCTCATGTGgtatgattctacatgttcaactttgaagatcactttactgctaaacctgtttatatatgcgttgcatatcttgcc-ctgtgtgttactgtagcttagatat--
|||||||||||| || |||||||||||||| ||||||||||| ||||| |||||||||||||| || || || |||||||| ||||||||||||||||||||||||| | | ||       |   || | || ||| ||        | ||  ||  || | |  |||||||  | |  | | ||    |||  | | |    
AAAAAGCATGGATGGAAAACCTTATGGGTACCACAATATGATTTTTAGTTGGATTGATACCATAAGCGACAACTATCCACCGCCATTAGATGCTCATGTGgtatgat-caatatcactttttgccaacagcattttgctaacgcttatattattaagtgtgct--atatcttatcgccatatattttcataggctggttgctt

upper sequence: GRMZM2G139374_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT4G27020.1 (Arabidopsis thaliana), 5'ss of exon 4
AAAAAGCATGGAGGGGAAACCTTATGGGTATCACAATATGATATTTAGCTGGATTGATACCATCAGTGATAATTATCCACCACCATTAGATGCTCATGTGgtatgattctacatgttcaactttgaagatcactttactgctaaacct--gtttatatatgcgttgca-tatcttgccctgtgtgttactg--tagcttagatat-------------------------------------------------------
    |||||||| || ||||| ||||| ||||||||  |||| ||||||||||| ||||||||||| |  ||||| ||||| ||  | ||||||||  | ||| | ||  |  | |   | |||    ||   |       |||   |  |||||| | |   |||   | ||||        |  ||     ||| |||    |                                                       
TCGTAGCATGGATGGCAAACCATATGGCTATCACAACTTGATCTTTAGCTGGATCGATACCATCAGCGGAAATTACCCACCTCCTCTGGATGCTCAACTTgtaggttttcatttctcagaattttggcattgatgacaacataagtttcagtttatctctttattgttctctctttaatcagcttctatcagttagtttatgggtgaggttgtgattgttttctctgtatctcttttccttctctattatgtttttccag

upper sequence: GRMZM2G139374_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT5G54870.1 (Arabidopsis thaliana), 5'ss of exon 4
AAAAAGCATGGAGGGGAAACCTTATGGGTATCACAATATGATATTTAGCTGGATTGATACCATCAGTGATAATTATCCACCACCATTAGATGCTCATGTGgtatgattctacatgttcaactttgaagatcactttactgctaaacctgtttatatatgcgttgcatatcttgccctgtgtgttactgtagcttagatat
    ||||||||||| ||||| ||||| ||||||||  |||| ||||| |||||||||||| | ||||| || || || || ||  ||||||| ||| | ||| | || |   | ||||  | | |  ||    ||  || | ||    |  |  |     | |    | |  |   | |  |  || |   | ||    
TCGCAGCATGGAGGGTAAACCATATGGTTATCACAACTTGATTTTTAGTTGGATTGATACCGTTAGTGAAAACTACCCGCCTCCTCTAGATGCCCATCTTgtaagtttttgt-ttttcatttctcacaatatagttcttgatgaatgaatacactttcaaatcgt---tttaacttcgggcttctctttctttcag----

upper sequence: GRMZM2G139374_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv19s0090g00100.t01 (Vitis vinifera), 5'ss of exon 4
AAAAAGCATGGAGGGGAAACCTTATGGGTATCACAATATGATATTTAGCTGGATTGATACCATCAGTGATAATTATCCACCACCATTAGATGCTCATGTGgtatgattctacatgttcaactttgaagatcactttactgctaaacctgtttatatatgcgttgcatatcttgccctg---tgtgttactgtagcttagatat
|   |||||||| || ||||||||||| || || || ||||||||||||||||| ||| |  |   ||| || |||||||| || |||||||||||||||||||  || | | | |     ||   | || |    ||  |  |  |  || | | | | ||   | || || | | |   ||  ||| | |     || |  
ACGTAGCATGGAAGGCAAACCTTATGGTTACCATAACATGATATTTAGCTGGATAGATGCTCTGGATGAAAACTATCCACCCCCCTTAGATGCTCATGTGgtattgtttttc-tctattgtttctcaaattaagcaacaac--atgcaattaaaacaagagtcagaaatgtttctcagatttggattatttttttaaaggtgc

upper sequence: GRMZM2G139374_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv19s0090g00130.t01 (Vitis vinifera), 5'ss of exon 4
AAAAAGCATGGAGGGGAAACCTTATGGGTATCACAATATGATATTTAGCTGGATTGATACCATCAGTGATAATTATCCACCACCATTAGATGCTCATGTGgtatgattctacatgttcaactttgaagat--cactttactgctaaacctgtt-tatatatgcgttgcatatcttgccctgtgtgttactgtagcttagatat
|   ||||  || || ||||||||||| || || || ||||||||||||||||| |||||  |   ||| || |||||||| || |||||||||||||||||||  || |   | |  |   || || ||  || |||   |||| | |||   || |  ||  ||  |||| |       | | |  || || |||  | | 
ACGTAGCAGTGAAGGCAAACCTTATGGTTACCATAACATGATATTTAGCTGGATAGATACTCTGGATGAAAACTATCCACCCCCCTTAGATGCTCATGTGgtattgtttt---tttctattgttaaatatttcattttctggctacatctgcaatacaggtggattctatatttcttttcttttatctctatatctttcaaaa

upper sequence: GRMZM2G139374_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S191_130V6.3 (Physcomitrella patens), 5'ss of exon 5
AAAAAGCATGGAGGGGAAACCTTATGGGTATCACAATATGATATTTAGCTGGATTGATACCATCAGTGATAATTATCCACCACCATTAGATGCTCATGTGgta-tgattctacatgttcaactttgaagatc--actttactgctaaacctgtttatatatgcgttgcatatcttgccctgtg-tgttactgtag--cttagatat-----------------------------
     | |||   |||  ||||||||| ||||| || |||||||||||||||||||||||    |  ||||||||||| || ||  | ||  |  |  ||||| |  || |||||  |  ||  |     |   | |||         ||  || | |||||   || |       | |  || |  | |||||   |||  ||||                             
TCGTCGAATGAGTGGGGCACCTTATGGCTATCATAACATGATATTTAGCTGGATTGATACTCCGACCGATAATTATCCCCCTCCTCTCGACTCCAACTTGgtaatttttttacattattgacagtagtattttaaatttgtcaggtctccacttgagatatgacatgaaccgtggactcaatggtcgtcctgtacatcttgtatatgctaaatactaagctggtgttggtgacag

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|6918323|gb|AW399853.1|AW399853
EST:     GGATTGATACCATCAGTGATAATTATCCGCCACCATTAGATGCTCATGTG                         GTTGCTTCTGTTATGACTGTATGGAGCAAGCTTCAACCAGAGTATGCTGCT
genomic: GGATTGATACCATCAGTGATAATTATCCACCACCATTAGATGCTCATGTGgtatgattct ... atgtccacagGTTGCTTCTGTTATGACTGTATGGAGCAAGCTTCAACCAGAGTATGCTGCT
EST: gi|71311669|gb|DR792242.1|DR792242
EST:     GTGATAATTATCC-CCACCCATTAGATGCTCATGTG                         GTTGCTTCTGTTATGACTGTATGGAGCAAGCTTCAACCAGAGTATGCTGCT
genomic: GTGATAATTATCCACCA-CCATTAGATGCTCATGTGgtatgattct ... atgtccacagGTTGCTTCTGTTATGACTGTATGGAGCAAGCTTCAACCAGAGTATGCTGCT
EST: gi|211364276|gb|FL199173.1|FL199173
EST:     GGATTGATACCATCAGTGATAATTATCCACCACCATTAGATGCTCATGTG                         GTTGCTTCTGTTATGACTGTATGGAGCAAGCTTCAACCAGAGTATGCTGCT
genomic: GGATTGATACCATCAGTGATAATTATCCACCACCATTAGATGCTCATGTGgtatgattct ... atgtccacagGTTGCTTCTGTTATGACTGTATGGAGCAAGCTTCAACCAGAGTATGCTGCT