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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACTCTGTGTTTGGTTCTCTTTCCAATGTGGGTGCTATGGTTGGTGCAATTGCCAGTGGTCAGATTGCAGAATACATTGGACGAAAAGGGgtatactttgttatctgattcttgatcgttctgttttagatccattttataaagtcctctttcttgcgttctaaacatcttattgtgttttcttggacag

Basic information

species Arabidopsis thaliana
transcript AT1G75220.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G75220.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os05g49270.1 (Oryza sativa), 5'ss of exon 2
TACTCTGTGTTTGGTTCTCTTTCCAATGTGGGTGCTATGGTTGGTGCAATTGCCAGTGGTCAGATTGCAGAATACATTGGACGAAAAGGGgtatactttgttatctgattcttgatcgttctgttttagatccattttataaagtcctctttcttgcgttctaaacatcttattgtgttttcttg--gacag-
| ||| ||||| || || || ||||| || || || |||||||| || ||||||||||||||||| || || |||||||| || ||||||||     || || |    || |||   | |     |   || || ||  ||    |   ||  | | |||   |   ||||  |         |   |   | 
TTCTCGGTGTTCGGATCGCTGTCCAACGTCGGCGCCATGGTTGGGGCGATTGCCAGTGGTCAGATGGCCGAGTACATTGGGCGCAAAGGGgtgagaattttttttctttttttg---ggtacacatcgtatgcagttattagttgcgctttcgtagggttaccagtctctttctaaaggacaataatggtggt

upper sequence: AT1G75220.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA14G08070.1 (Glycine max), 5'ss of exon 3
TACTCTGTGTTTGGTTCTCTTTCCAATGTGGGTGCTATGGTTGGTGCAATTGCCAGTGGTCAGATTGCAGAATACATTGGACGAAAAGGGgtatactttgttatctgattcttgatcgttctgttttagatccattttataaagtcctctttcttgcgttctaaacatcttattgtgttttcttggacag------------------------------
|  ||| ||||||||||| | |||||||||||||| |||||||| ||||| ||||||||||||||||| || ||||| || || |||||||||  |||| || |||  ||     |  || ||| |   || | |||  |  | |     |  ||| |||  |   ||     |   ||   |||| ||                               
TTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATAGCCAGTGGTCAGATTGCCGAGTACATAGGGCGCAAAGGGgtacccttttttctcttttttcgtgtgtttatgtgt---atgcttttcctttaatttcaatatttgagtttgagggatgaggcta-attcaattggtcaacgggttacaatttcttgtctgaaattgcag

upper sequence: AT1G75220.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA17G36950.1 (Glycine max), 5'ss of exon 3
-TACTCTGTGTTTGGTTCTCTTTCCAATGTGGGTGCTATGGTTGGTGCAATTGCCAGTGGTCAGATTGCAGAATACATTGGACGAAAAGGGgtatactttgttatctgattcttg--------atcgttctgttttagatccattttataa-----agtcctctttcttgcgttctaaacatcttattgtgttttcttggacag-------
 |  ||| ||||||||||| | |||||||||||||| |||||||| |||||||| |||||||||||||| || ||||| || || |||||||||  | || || |    || ||         ||  || |  ||||  | || | | | |     ||   |    ||  |    |   || |   ||    |||||||            
GTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATTGCTAGTGGTCAGATTGCTGAGTACATAGGGCGCAAAGGggtaccccttttttttctcttttttctatgtgtatgcttttcctttaactgcaatatttgagtttgagggatgagactaactcaatggtcaacgggttacaatttcttgtctgaaattgca

upper sequence: AT1G75220.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv18s0001g12560.t01 (Vitis vinifera), 5'ss of exon 3
TACTCTGTGTTTGGTTCTCTTTCCAATGTGGGTGCTATGGTTGGTGCAATTGCCAGTGGTCAGATTGCAGAATACATTGGACGAAAAGGGgtatactttgttatctgattcttgatcgttctgttttagatccattttataaagtcctctttcttgc-gttctaaacatcttattgtgttttcttggacag-------
|||||| | ||||||||| | || |||||||| || |||||||| ||||| |||   ||||||||| | ||||| ||||| ||||||||||||         ||   ||  || |||||| |   |||    |   |  |      || |   |  | |   |     | || ||   ||||||| || |        
TACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATAGCCTCCGGTCAGATTTCTGAATATATTGGGCGAAAAGGGgtagg-------atgaaatcattcatcgtttttccttactaacggctagtgtttcgctttcaataaccgacttttgtttttttttcctttttctttgataaactgaag

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|125155270|gb|EL185481.1|EL185481
EST:     AATACATTGGACGAAAAAGGG                         TCTCTTATGATTGCTGCAATTCCCAATATCATTGGATGGCTTTGCATATC
genomic: AATACATTGGACG-AAAAGGGgtatactttg ... tcttggacagTCTCTTATGATTGCTGCAATTCCCAATATCATTGGATGGCTTTGCATATC