Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaccttcatgtgtcgataacttgttactaaacccatttctttgctactgtgtttgctctctgcttagctattggatctagctcattttgcttcatttttacttgcagATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGACTATGATAACCCAACAAAGCCCATCTACTTATATATAAATTCACCCGGGA

Basic information

species Arabidopsis thaliana
transcript AT1G49970.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G49970.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G26950.1 (Glycine max), 3'ss of exon 4
----gtaagaccttcatgtgtcga---taacttgttactaaacccatttctttgctactgtgtttgctctctgcttagcta--ttggatctagctcattttgcttcatttttacttgcagATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGACTATGATAACCCAACAAAGCCCATCTACTTATATATAAATTCACCCGGGA
    | |  |||   |||  ||     |  |   | ||||    |  |   | | ||   |   |||| |||  |   | |  || ||| |  || |||  |  |   |  |   | ||||| ||||| || || || ||  |  | |||||||||||||||||||| || ||||||||||| || || || || ||||| ||||| |||||| | || |
gtaagcatcaccccaatgactcatgtttttcccctgactagcttctgtatataggtatc-tacctgctatcttttatcccaattttgatgttccttattaagtctttatgatttgtacagATTGTACCAGCTGTGACAGAACTTATTGTTGCTCAATTTATGTGGTTGGATTATGATAACCCTACCAAACCTATTTACTTGTATATTAATTCATCAGGAA

upper sequence: AT1G49970.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G40390.1 (Glycine max), 3'ss of exon 3
----gtaagaccttcatgtgtc--gataacttgttactaaacccatttctttgctactgtgtttgctctctgcttagcta--ttggatctagctcattttgcttcatttttacttgcagATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGACTATGATAACCCAACAAAGCCCATCTACTTATATATAAATTCACCCGGGA
    | |   || | |||  ||  | |  |    |||||    |      | | ||   | | |||| |||  |   | |   | ||| |  || |||  |  |   |  |   | ||||| ||||| || || || ||  |  | |||||||||||||||||||| || ||||||||||| |  || || || ||| | ||||| |||||| | || |
gtaagcatcgccctgatgactcatgttccccccctactagcttctgcatataggtatc-tatctgctatcttttatcccaatcttgatgttcctaattacgtctttatgatttgtacagATTGTACCAGCTGTGACAGAACTTATTGTTGCTCAATTTATGTGGTTGGATTATGATAACCCTAGCAAACCTATTTACCTGTATATTAATTCATCTGGAA

upper sequence: AT1G49970.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv03s0091g00700.t01 (Vitis vinifera), 3'ss of exon 3
----------------gtaagaccttcatgtgtc--gataacttgttactaaacccatt-tctttgctactgtgtttgctctctgcttagctattggatctagctcattttgcttcattt--ttacttgcagATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGACTATGATAACCCAACAAAGCCCATCTACTTATATATAAATTCACCCGGGA
                 |  |    || ||||    |   | | | ||  ||   |  | | | |  | |  | ||  |  ||   ||   || | |   |      ||||    | | |  ||   |||||||||||||||||||  ||||| | || |||||||| ||||||||||| || | ||| |||||  ||||||| || ||  | || ||||||||| | || |
gtaagtcattctctctctttgtttatcctgtgctctgggtattggctaggaacttccctatttctcttgccatatt--ccttcgatttgattagttgccttgatattttttttcccctctaattttctgcagATCGTACCTGCAGTAGCTGAGCTTCTTGTTGCTCAGTTTATGTGGTTGGATTTTGACAACCCCTCAAAGCCTATATATCTCTACATAAATTCAACTGGAA

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|124829544|gb|EH914135.1|EH914135
EST:     ATTTGCCTTCCTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCA                         ATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAAT
genomic: ATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCAgtaagacctt ... ttacttgcagATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAAT
EST: gi|47831292|gb|CK120976.1|CK120976
EST:     ATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCA                         ATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGAC
genomic: ATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCAgtaagacctt ... ttacttgcagATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGAC
EST: gi|47829642|gb|CK119326.1|CK119326
EST:     ATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCA                         ATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGAC
genomic: ATTTGCCTTCTTTGCTATTGGATGCTCGCATATGCTACCTTGGCATGCCAgtaagacctt ... ttacttgcagATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctctctgcttagctattggatctagctcattttgcttcatttttacttgcagATCGTACCTGCAGTTACTGAGTTACTCGTTGCTCAATTTATGTGGTTAGACTATGATAACCCAACAAAGCCCATCTACTTATATATAAATTCACCCGGGA
                                ttttgcttcattttt  CT-rich tract
                                      ttcattttta  TA-rich tract