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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaatctctgctttaaaagttctggttggtcacaatgttgtattatttgtcgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag

Basic information

species Zea mays
transcript GRMZM2G141587_T05
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 6
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaatctctgctttaaaagttctggttggtcacaatgttgtattatttgtcgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag
|||||| ||||| ||||||||||||||||| |||||||| ||||||||||| ||||||||||| || |||||||||||||| || ||||||||| |||||||||| | | | | | | ||| |   | || ||||      | ||| |||  |     |  || |  |        |||||  ||| |  ||| ||||   |  |    
TCAAATCTTCGAGGGGCATTCTCACTATGTTATGCAAGTCACATTTAACCCGAAAGATACCAATACTTTTGCTAGTGCTTCACTTGATCGCACAGTAAAGgtttgcg-attttgttccttaca---tttgcttggcatagtttttgcatttctaacatttcttggtctg-----gatttgaatgtggtgcccttatttaatttcag---

upper sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 6
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaatctctgctttaaaagttctggttggtcacaatgttgtattatttgtcgtcattagctttttcatagtttgatggtgatatcctaat----ttctgtctatcag
 || ||||| || || |||||||| ||||| |||||||| |||||||| || ||||| || ||||||||||| ||||| || || |||||||| |||||||| |   |    ||| |||    |||| ||    | ||   | ||   ||||||     ||      |  | | | ||  |  || || |  ||||    |  | |||  |||
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatacatgtgttcttctt-gctagttgtgtcctg-cattttctttgtttatttccaaacaccta--tgataaaaattaaaaagtaatgtattaatgttatcttttcttgcag

upper sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaatctctgctttaaaagttctggttggtcacaatgttgtattatttgtcgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag
 || ||||| ||||| |||||||| ||||| |||||||| |||||||| || ||||| || ||||||||||||||||| || || ||||| |||||||||||     ||   |||  ||        ||||||| |  | ||| | || |   |     ||   | | | |  |  ||| |                            
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgtagaattatgttcttgttc-------ctggttgtttcctatgatataatgcattaatgcacctgttgtcttctcttttcag---------------------------

upper sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 6
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttg--tgtaatctctgctttaaaagttctggtt----ggtcacaatgttgtattatttgtcgtcattagcttttt-catagtttgatggtgatatcctaatttctgtctatcag
 || ||||| ||||| |||||||| ||||| |||||||| |||||||| || ||||| || ||||||||||| ||||| || || ||||| ||||||||||| |   | |  |||      |  | |||    ||        | ||    |||  |         || | | | |   ||| |    || ||  |   | ||       | ||||
CCAGATATTTGAAGGTCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCAAGTGCATCTCTTGATCGGACAATAAAGgtgtaattatgttcttgttcctggatgtttcttttttaaaaaaaaaaaaaagtaaaaagaaaaactatgatcctatgatataatgcattgatgcaactgttatcatctcttttcag

upper sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 6
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaatctctgctttaaaagttctggttg-gtcacaatgttgtattatttgtcgtcattagctttt--tcatagtttgatggtgatatcctaat-ttctgtctatcag---
 || ||||| || || |||||||| ||||| |||||||| |||||||| || ||||| || ||||||||||| ||||| || || |||||||| |||||||| | |  |     |  | |       || |||| |||   |  ||   || ||| |   |||     | |  | | | ||| |  || || |  |||| || | |  |   |   
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatatacatgtgttcttctcg-----ctagttgtgtcctgaattttctttgtttatttccatacatctatgataaaaatttaaaagtaatgtattaatgttatcttcaattgcag

upper sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaatctctgctttaaaagttctggttggtcacaatgttgtattatttgtcgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag
||| |||||||| || || || ||||||||||||||||| |||||||| |||||||| |||||||| ||||| ||||| ||||| ||||| || ||||||||   || |||    | | ||| |    ||     |||  ||| |   ||| |   | |  |  |||  ||| ||  || |     || | | |  ||| |        
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgc-tgaaat----ggtctaaca---ttgaaacatcattatggt---ttagtccgcttagtccgctcattc-tacgtttacatgcatgttc-atcttcag--------

upper sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 10
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaatctctgctttaaaagttctggttggtcacaatgttgtattatttgtcgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag-
|||||| |||||||| ||||| || ||||| |||||||| || || ||||| ||||| ||||| || ||||||||||| ||||| || || || ||||| ||  |  || |||     ||  |||||     |  |       ||     ||||  | | || ||    || | | ||   |     ||||   || | |   || |   
TCAAATTTTCGAAGGCCATTCCCATTATGTTATGCAAGTCACTTTCAACCCCAAAGACACCAATACTTTTGCTAGTGCATCCCTTGACCGTACCATAAAAgtaagattagtcttcaacttttaagttacaccttcttctttcatt-cccaatttcccattatgagaagcttaacatttgttttcctgtatctacatcttttcttacctag

upper sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaatctctgctttaaaagttctggttggtcacaatgttgtattatttgtcgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag
||| ||||| || || ||||| |||||||||||||||||   |||||| ||||||||||||||||| ||||| |||||||| || ||||| || |||||||| |||   |  ||         || | |  | | | |     | | |  |  |    | |  ||  ||||| |||  | ||  |   || ||  ||  | |  |    
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggcttagt---tagcacgaggtacttttaaaagggttttcttagactaatttt--catgcttgttcatattcag---

upper sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 6
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttg-tgtaatctctgctttaaaagttctggttggtcacaatgttgtattatttgt-cgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag-
||| || || || || || ||||| |||||||||||||| |||||||| ||||||||||||||||| ||||||||||| || ||||||||||| || ||||| || | |    | |   ||   |  |   |||     || | || ||  | || | | |||| |  | |    |    |  |  || | |  | || |||   | ||   
TCAGATCTTTGAGGGCCACTCTCATTATGTGATGCAAGTGACATTTAATCCAAAAGATACCAACACTTTTGCTAGTGCATCTCTGGATCGCACCATTAAGgtatgatctggattttctgttggcaactt--gttaactgcatttttttaccaattttgcttcatcaagtatga-gtgtgctatttatgctctgatgatatctccttttccag

upper sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 6
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgt--aatctctgctttaaaagttctggttggtcacaatgttgtattatttgtcgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag
||| || || ||||||||||||||||| ||||||||||| |||||||| |||||||| |||||||||||||| ||||| ||||| |||||||| |||||||| || ||  ||    | ||| | ||  | | || |  |   | | ||| ||  |    ||| | |   | || ||  ||  || ||   ||  || |   ||| |     
TCAGATTTTTGAAGGGCATTCTCACTACGTGATGCAAGTGACATTTAATCCAAAAGACACCAACACCTTTGCAAGTGCCTCCCTCGATCGCACTATAAAGgtgtgagtggaaatgtttcttgataacctgttgt-gaacttgaagatgtgtt--tcaatgtcctaa---tgttgatccttccatagttg-attttattgattgtgtg----

upper sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
lower sequence: PP1S79_180V6.2 (Physcomitrella patens), 5'ss of exon 6
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgt------ttgtgtaatctctgctttaaaagttctg-gttggtcacaatgttgtattatt-tgtcgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag------------------------------------------------------------------------------
|||||| ||||||||||| ||||| ||||| |||||||| || ||||| || ||||| | |||||||||||| ||||||||  ||||||| ||  | |||||           |  |  |  | || |   |||||   |  |  |  | ||| | ||||      ||||  | ||  | ||    | || |   || || |  |||   | |  |                                                                               
TCAAATTTTCGAAGGGCACTCTCATTATGTCATGCAAGTAACGTTTAATCCCAAAGACAGCAACACCTTTGCAAGTGCTTCTTTGGATCGAACTGTGAAGgtgaggtaccagttggttccgtcgtttatttttctgcagtattagctgtcttgaaatattacaaaatcatagggttccttatg--ctaatagctttaccccatattcaagcaacgaagttcaactgatgtaagattgtcttccaagacaatagaacaaaacgatggcttaattgtatggactgtctttttaacag

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|60341035|gb|DN208008.1|DN208008
EST:     CAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAG                         ATATGGAGTCTTGGTTCCCCTGATCCAAATTTCACACTAGATGGCCATTCG
genomic: CAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaa ... tgtctatcagATATGGAGTCTTGGTTCCCCTGATCCAAATTTCACACTAGATGGCCATTCG
EST: gi|76282808|gb|DV022376.1|DV022376
EST:     CAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAG                         ATATGGAGTCTTGGTTCCCCTGATCCAAAGTTCACAC
genomic: CAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaa ... tgtctatcagATATGGAGTCTTGGTTCCCCTGATCCAAATTTCACAC
EST: gi|18963893|gb|BM660689.1|BM660689
EST:     CAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAG                         ATATGGAGTCTTGGTTCCCCTGATCCAAATTTCACACTAGATGGCCATTCG
genomic: CAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaa ... tgtctatcagATATGGAGTCTTGGTTCCCCTGATCCAAATTTCACACTAGATGGCCATTCG