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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagcaagtctggccactgccagtgctaccagtgagcaacgaaccattca...

Basic information

species Zea mays
transcript GRMZM2G132184_T03
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 5'ss of exon 5
TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtca-tatttgccatgactgtgtccatcg-----aactctggtggtgagcaagtctggccactgccagtgctaccagtgagcaacgaaccattca
||||||||||| ||||| || ||||||||||| |||||||| || |||||||||||||||||||| ||||| |||||||| || || ||||| ||||| |||||||   |  ||| |  |  ||| |  ||     | ||     |||   || |||  |  | | |    || || |||     |  | |    | ||  |    
TTTGGGCTTGCCAAAGATGGCCCTGTAGGTGACAAAACTCACGTGTCTACTCGAGTAATGGGAACATATGGTTATGCAGCTCCGGAGTATGTTATGACAGgtaagtgcttcatcagtcatcaccagggttgacgttaccgccggtaaccgcgggggtacggtaatataaataccgc-agtaacctccttaaatt-caaataa----

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G40770.1 (Glycine max), 5'ss of exon 5
TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagca--agtctggccactgccagtgctaccagtgagcaacgaaccattca
||||| ||||| ||||| || || |  ||||||||||| ||||| ||||||||||| |||||||||||||| |||||||||||||||||||||||||| |||||||   | ||    | ||| |   |   ||         | || || |    |  |||   |  |       |  | |    |     | | |     |
TTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagt--ttagttgggtatgctaaacccaagtttgcaaggttttgctgctatttatcagtgaagtaatgcatgatcattctctggtatttccatctcccta

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA19G02730.1 (Glycine max), 5'ss of exon 4
TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagcaagtctggc-cactgcca-gtgctaccagtgagcaacgaaccattca---
|||||||||||  |||| |  || || || ||||||||||||||||| |||  ||||||||||||  | || |||||||| || || ||||| ||||| ||| |||||  | ||| |  |  |||   | ||| || | || |  | |  |   || || | ||  ||   ||   |||    |  |  | | | | | | |   
TTTGGGCTTGCCCAAGATGCTCCAGTGGGAGATAAAACTCATGTTTCCACTGAAGTAATGGGAACACAAGGCTATGCAGCCCCTGAGTATGTGATGACGGgttagtatgctctcaaacatctcat---tttgttcaaccaaat--gttactattcatgtgtagcatacaatcacaagctttatgaaaatacctagctagttaggg

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA01G04930.1 (Glycine max), 5'ss of exon 5
TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagcaagtctggccactgccagtgc-taccagtgagcaacgaaccattca--
||||| ||||| ||||| || || | |||||||||||| ||||| |||||||| || |||||||||||||| || ||||||||||||||||||||||| ||||||| |  | | ||||  |||| |      ||   |    | | || ||     | || |       | | ||| ||    | |         |  ||   
TTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACGCAGCACCAGAATATGTCATGACAGgtaagtttagtttgatata-gcca-gttcaaatctg-catgttttagttgttttttattcggaaagtcacaaatgcatatgctttattgttatttctatctgt

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA02G02570.1 (Glycine max), 5'ss of exon 5
TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagcaagtctggccactgccagtgctaccagtgagcaacgaa--ccattca-
||||| ||||| ||||| || || | |||||||||||| ||||| ||||||||||| |||||||||||||| |||||||||||||||||||||||||| ||||||| |  | | ||||  |||| |      ||   |    | | || || |   | |  |       |   ||||     |  |   |     | ||    
TTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagtttagtttgatata-gcca-gttcaaatctg-catgttttagttgttatttatttggaaagtcacacatgcttatgctttgttgctgtttctatctgt

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA18G16300.1 (Glycine max), 5'ss of exon 6
TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtat--cttgtcatatttgccatgactgtgtccatcgaact-ctggtggtgagcaagtctggccactgccagtgctaccagtgagcaacgaaccattca
||||| ||||| ||||| || || |  ||||||||||||||||| ||||||||||| |||||||||||||| |||||||||||||||||||||||||| ||||||| |   | |  ||  |       | | ||    |  | || ||  |  | ||  |       ||    || |    |  ||     |  |   |||  
TTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACTCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagtttagttggctatgctaagtccaagtttgcaggtttagctgctatttttcagtgaagtaatgcatgatcattct--ctggtatctgattacatattt-

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT3G01300.1 (Arabidopsis thaliana), 5'ss of exon 5
TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatc--ttgtcatatttgccatgactgtgtccatcgaactctgg-tggtgagcaagtctggccactgccagtgctaccagtgagca-acgaaccattca---------------------------------------------------------------------------------
||||||||||| ||||| |  ||||  |  |  ||||||||||| ||||||||||| ||||| || ||||| || || || || || ||||| ||||| ||||||| |   || |  | |||||  |   |     | || |  | |   |  |  | | |  ||   |  |  | |   |    |   || | |    || ||                                                                                 
TTTGGGCTTGCCAAAGATGCTCCTGATGAAGGCAAAACTCATGTGTCTACTCGAGTCATGGGCACTTATGGTTACGCTGCCCCCGAGTATGTAATGACCGgtaagttttgttttttgtctttgcatttcattcactcctctacttatatcttctctgtatggttgaatatagaaaattagaaacctacacatatggttgatgcaaagtattactatgatgaaacatacatctaatttctttggtttgagattatatataactactgtcctcttattactccttag

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT3G28690.1 (Arabidopsis thaliana), 5'ss of exon 4
TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagcaagtctggccactgccagtgctaccagtgagcaacgaaccattca
||||||||||| ||||| |  || |  |   | ||| | || || || || ||||| |||||||| ||||| ||||| || || |||||||| |||||||||||||     |  || ||   | ||  | ||    ||| | | | |   |||||   | | |    |   |||  ||  | ||| || |          
TTTGGGCTTGCAAAAGATGCTCCAGACGAGAAAAAATCCCACGTATCAACCCGAGTCATGGGAACTTATGGTTATGCTGCCCCTGAATATGTAATGACTGgtaagt---cagctatcttgaacttgtttttggttttcgcattatag-attgagc---ttttgaacttagaagttttaata-tgaacatcag--------

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv01s0026g01620.t01 (Vitis vinifera), 5'ss of exon 5
TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatat--ttgccatgactgtgtccat----cgaactctggtggtgagcaagtc-tggccactgccagtgctaccagtgagcaacgaaccattca
||||| ||||| ||||| || || |  || ||||| |||||||| ||||| || || |||||||| ||||||||||| || || |||||||| ||||| ||||||    |    ||     |  ||  | || | | |      |||||||  |  | |  || || |   | |||    |  || |  | |     |         
TTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATGCTGCCCCTGAATATGTGATGACAGgtaagagcatgcgtattcggctttcaatattgagccaaaaaaatgaactctctttttaaagaaatcatattccctgttgattttatccattaaatctggt-------

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|76282950|gb|DV022518.1|DV022518
EST:     TCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTG                         GTCATCTGACATCAAAGAGTGATGTCTACAGCTTCGGGGTGGTGCTTCTTG
genomic: TCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatct ... cacttttcagGTCATCTGACATCAAAGAGTGATGTCTACAGCTTCGGGGTGGTGCTTCTTG
EST: gi|148928770|gb|EC873531.2|EC873531
EST:     TCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTG                         GTCATCTGACATCAAAGAGTGATGTCTACAGCTTCGGGGTGGTGCTTCTTG
genomic: TCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatct ... cacttttcagGTCATCTGACATCAAAGAGTGATGTCTACAGCTTCGGGGTGGTGCTTCTTG
EST: gi|5499049|gb|AI854916.1|AI854916
EST:     TCGAGTAATGGGAACCTATGGATATGCAGCACCAGA-TATGTCATGACTG                         GTCATCTGACATCAAAGAGTGATGTCTACAG
genomic: TCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatct ... cacttttcagGTCATCTGACATCAAAGAGTGATGTCTACAG