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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgttgagtttgctcactatacataataaatggttagcatacagttgcatagaatgaaattgtgtatccttgtctacagAATTGAGTTAGATGCGAAACTACCAATCGTCGGTAATCAAAAATGGGTCATTTGGATTTGCTCATTCAATATACCAATGGCTCCAGGAAAGACCCGTTCC

Basic information

species Arabidopsis thaliana
transcript AT3G44880.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G44880.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os03g05310.1 (Oryza sativa), 3'ss of exon 4
-------------------------------------------------------gtgagtgttgagtttgctcac-tatacataataaat--ggttagcatacagttgcatagaatgaaattgtgtatccttgtctacagAATTGAGTTAGATGCGAAACTACCAATCGTCGGTAATCAAAAATGGGTCATTTGGATTTGCTCATTCAATATACCAATGGCTCCAGGAAAGACCCGTTCC
                                                        |   ||| || || |||||  |||   |   | ||   || |    ||   ||  |   ||    | || | || || | |  ||||||||| ||||  | ||  |||| ||  | ||  |||| ||||||||||| ||||||||||| ||||| || |||||||| ||||| ||||| ||||| 
gtatgttcagcaaaacactctaatcatgccttttcccatttcattgcatttgccttttgatgt-gaattagctcatatatcagtttcacatccagtaactccacttatgattctgatcttttagtatttcgttttttgtagAATTGAGATAGACACAAAGTTACCCATTTTTGGAGATCAGAAATGGGTCATATGGATTTGCTCTTTCAACATTCCAATGGCCCCAGGGAAGACTCGTTCT

upper sequence: AT3G44880.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G339563_T01 (Zea mays), 3'ss of exon 4
-----------------------------gtgagtgttgagtttgctcactatacataataaatggttagcatacagttgcatagaa-tgaaattgtgtatccttgtct--acagAATTGAGTTAGATGCGAAACTACCAATCGTCGGTAATCAAAAATGGGTCATTTGGATTTGCTCATTCAATATACCAATGGCTCCAGGAAAGACCCGTTCC
                              ||||||| ||||        | |||    |||    ||        |||  |  |   |||| || |||   || |  |  ||||||| ||| ||||  | ||  |||| ||  | ||  | || ||||||||||| ||||||||||| ||||| || |||||||| ||||| ||||| ||||| 
gtaagtttcagaaaagtacctggtcatctttgagtgtggagtgattcttatttaccacttaagcaattca---gtcgttatacggttctgaacttctgttaactggcttgtacagAATAGAGATAGACACAAAGTTACCCATTTTTGGCGACCAGAAATGGGTCATATGGATTTGCTCTTTCAACATTCCAATGGCCCCAGGGAAGACTCGTTCT
















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|116476112|gb|EG518704.1|EG518704
EST:     AGTCCAAGGATAACCGCAAAATTTGTTGCTCCGTGCTATTCTATGAACAA                         AATTGAGTTAGATGCGAAACTACCAATCGTCGGTAATCAAAAATGGGTCAT
genomic: AGTCCAAGGATAACCGCAAAATTTGTTGCTCCGTGCTATTCTATGAACAAgtgagtgttg ... ttgtctacagAATTGAGTTAGATGCGAAACTACCAATCGTCGGTAATCAAAAATGGGTCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aataaatggttagcatacagttgcatagaatgaaattgtgtatccttgtctacagAATTGAGTTAGATGCGAAACTACCAATCGTCGGTAATCAAAAATGGGTCATTTGGATTTGCTCATTCAATATACCAATGGCTCCAGGAAAGACCCGTTCC
                                          tccttgtct  CT-rich tract
                            aatgaaatt  TA-rich tract