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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAGgtattgaatatcgtcgtcttgactgtgcatttcagagtgcttatatatttactttccttcatcaaaaaatatgcgttgtcattaagggtttggtgggcatgtagcttacctctgatttgacaattgctttgtag

Basic information

species Arabidopsis thaliana
transcript AT4G05420.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G05420.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 5
AGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAGgtattgaa--tatcgtcgtcttgactgtgcat------ttcagagtgcttatatatttactttcct----tcatcaaaaaatatgcgttgtc--attaagggtttggtgggc--------atgtagcttacctctgatttgacaattgctttgtag
 |||||||||||||||||||| || ||||| || || ||||| ||||||||||||||  |  | |  |  |  |  ||    ||      || | |||  | ||||  || |  |  |    |  | ||    ||||| || ||   |  ||| |  | ||           ||| |  | | || | |||  |   |   | || ||
GGCAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAGgtatttgaattgttttacttctatctactgataaaactttgatagttataatattctttcagttttgatatttttaacgtttatgctttatctagtctaggatcagttgaaagttgttcaatgcatttcagctgttattccattctctttctgcag

upper sequence: AT4G05420.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G30530.1 (Glycine max), 5'ss of exon 5
AGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAGgtattgaa-----tatcgtcgtcttgactgtgcatttcagagtgcttata-tatttactttccttca------tcaaaaaatatgcgttgtc--attaagggtttggtgggc--------atgtagcttacctctgatttgacaattgctttgtag
 |||||||||||||||||||| || ||||| || || ||||| ||||| ||||||||  |     | |  |  | |  ||||   |     | ||  ||||| ||||   |    ||        | || |  ||||| || ||   |  ||| |  | ||           ||| |  | | || | |||  |   |   | || ||
GGCAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGCCAGgtatttgaattgttttacttatatctactgataaaacttgggtagttatagtattctttcagttttgatatttttaacatttatgctttatctagtctaggatcagttgaaagttgttcaatgcatttcagctgttattccattttctttctgcag

upper sequence: AT4G05420.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 5
AGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAGgtattgaatatcgtc-gtcttgactgtgcatt-tcagagtgcttatatatttactttccttcatcaaaaaatatgcgttgtcattaagggtttggtgggcatgtagcttacctctgatttgacaattgctttgtag
||||||||| ||||| || ||||||||||| || || ||||||||||| |||||||  | | |  |   |  |   | |   || |    |  ||  | | ||   ||||  | ||     ||  |   || |    ||    |||   | |||||     |  | | | ||  |  || ||   |||
AGCAATGGGAGATGTCTCAGATCGTATAGGTCGTCCTACAGACAATGGACAGgtatcaattttaatttatgctctttttattttgttcatgaactactgtgttggatttcaattatactctaaattattttttttgcaaccacttg---gacatgttaaccatgttttaattttctctt-ctccatag

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|116455518|gb|EG498110.1|EG498110
EST:     CAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAG                         ATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGAC
genomic: CAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAGgtattgaata ... tgctttgtagATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGAC
EST: gi|116382313|gb|EG424905.1|EG424905
EST:     CAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAG                         ATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGAC
genomic: CAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAGgtattgaata ... tgctttgtagATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGAC
EST: gi|116382318|gb|EG424910.1|EG424910
EST:     CAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAG                         ATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGAC
genomic: CAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAGgtattgaata ... tgctttgtagATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGAC
EST: gi|116382315|gb|EG424907.1|EG424907
EST:     CAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAG                         ATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGAC
genomic: CAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAGgtattgaata ... tgctttgtagATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGAC
EST: gi|116456285|gb|EG498877.1|EG498877
EST:     GGCCAACAGACAATGGTCAG                         ATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGAC
genomic: GGCCAACAGACAATGGTCAGgtattgaata ... tgctttgtagATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGAC