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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgaatttgtttcgctagccgaaccaatattttactttgttttgtttttgtaattccatattggtttctaaatgcggcttaattattttgtatctagACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCATTCTGACTATGTTACTTGTTTGGCAGTTGCGGCAAAAAAT

Basic information

species Arabidopsis thaliana
transcript AT3G05090.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 4
gtttgtgaatttgt-----ttcgctagccgaaccaatattttactttgttttgtttttgtaattccatattggtttctaaatgcggcttaattattttgtatctagACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCATTCTGACTATGTTACTTGTTTGGCAGTTGCGGCAAAAAAT
||||||  |||  |     ||   ||  | || ||||| ||    || || ||   |  ||     |  |   |   ||  | |  |||  || || ||| || |||||||| | |   | ||   ||||   ||||| ||||||||||| || || |||||||||||||||||  | ||||  || | |||||||
gtttgttgattgctagctgttttttattccaatcaatacttg---ttcttctgaaataataccagtacttacataattatttacaccttcttt-ttatgtgtc-agACATGGAATGCCCTGTCCTTTGGAACTTGTACTAGGACTCTCCGGCAACACTCTGACTATGTTACTTGCCTTGCAGCAGCTGAAAAAAAT

upper sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 4
gtttgtgaatttgtttcgctagccgaaccaatattttactttgttttgtttttgtaattccatattggtttctaaatgcggcttaattattttgtatctagACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCATTCTGACTATGTTACTTGTTTGGCAGTTGCGGCAAAAAAT
|||||| ||||||  ||  |    |      | |||||   | |      | ||    |   |||||  || |        | | |||    |  | | |||| ||| |  | || || ||||||   ||||| |||||||||||||| || |||||||||||||||||| | || |  || | |||||||
gtttgtcaatttgaatccatcattg--ttggttttttaacctatggaaaatctgattatttttattgacttat-----ttcccttattgagatacacc-agACCTGGAATTGCTTGTCTGATGGAACTTGTACCAGGACTCTCCGTCAACACTCTGACTATGTTACTTGTCTCGCTGCAGCAGAAAAAAAT
















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|116407306|gb|EG449898.1|EG449898
EST:     TGGCTGGTGAGAGCACTCTTGTTTCTTGTTCTTCAGACACTACGGTCAAG                         ACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT
genomic: TGGCTGGTGAGAGCACTCTTGTTTCTTGTTCTTCAGACACTACGGTCAAGgtttgtgaat ... ttgtatctagACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT
EST: gi|116407304|gb|EG449896.1|EG449896
EST:     TGGCTGGTGAGAGCACTCTTGTTTCTTGTTCTTCAGACACTACGGTCAAG                         ACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT
genomic: TGGCTGGTGAGAGCACTCTTGTTTCTTGTTCTTCAGACACTACGGTCAAGgtttgtgaat ... ttgtatctagACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT
EST: gi|116449111|gb|EG491703.1|EG491703
EST:     TGGCTGGTGAGAGCACTCTTGTTTCTTGTTCTTCAGACACTACGGTCAAG                         ACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT
genomic: TGGCTGGTGAGAGCACTCTTGTTTCTTGTTCTTCAGACACTACGGTCAAGgtttgtgaat ... ttgtatctagACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT
EST: gi|116407303|gb|EG449895.1|EG449895
EST:     TGGCTGGTGAGAGCACTCTTGTTTCTTGTTCTTCAGACACTACGGTCAAG                         ACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT
genomic: TGGCTGGTGAGAGCACTCTTGTTTCTTGTTCTTCAGACACTACGGTCAAGgtttgtgaat ... ttgtatctagACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT
EST: gi|164177772|gb|EL997631.1|EL997631
EST:     GTTCTTCAGACACTACGGTCAAG                         ACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT
genomic: GTTCTTCAGACACTACGGTCAAGgtttgtgaat ... ttgtatctagACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT
EST: gi|116407307|gb|EG449899.1|EG449899
EST:     TGGCTGGTGAGAGCACTCTTGTTTCTTGTTCTTCAGACACTACGGTCAAG                         ACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT
genomic: TGGCTGGTGAGAGCACTCTTGTTTCTTGTTCTTCAGACACTACGGTCAAGgtttgtgaat ... ttgtatctagACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttttgtaattccatattggtttctaaatgcggcttaattattttgtatctagACATGGGACGGTTTATCAGATGGAGTCTGTACGAGGACTCTCCGTCAGCATTCTGACTATGTTACTTGTTTGGCAGTTGCGGCAAAAAAT
                                        ttatttt  CT-rich tract
                                    ttaattattttgtatc  TA-rich tract