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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcgttatttgttgattcttttttatattttgttgttgttgtgtttgctgttgttttgtcatcgtcttgatttcgtaataagaacatgtagtttaataacattttcctgaatttgataaaattgtggtgaaaagaggcataattttttctttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGTGCTAACATTGGTGTGGATCCTCTTGCTTCTAACAAGGGTTTCTGGGCTG

Basic information

species Arabidopsis thaliana
transcript AT4G27040.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G27040.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G11630.1 (Glycine max), 3'ss of exon 1
gtcgttatttgttgattcttttttatattttgttgttgttgtgtttgctgttgttttgtcatcgtcttgatttcgtaataagaacatgtagtttaataacattttcctgaatttgataaaattgtggtgaaaagaggcataattttttctttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGTGCTAACATTGGTGTGGATCCTCTTGCTTCTAACAAGGGTTTCTGGGCTG-
                                                       ||| | |  |  ||   || || |   |  ||  | |||  ||   ||    | |||  ||| |||||    |  |   | |  |  | ||  ||   ||| ||||||||||| || ||||||||||| |||||  | ||||| |||||||||||||||||  |||| || || ||  | || || ||||||||||||||| | | 
------------------------------------------------------gttggccttataatggaatcctactttaattat-cacttttgtatttttgcaattaat--gattaaattaaaatacactaacggttggtattacct---gtt-cagaATGACATCCGCAAGAATCCTGCATTCAGATCACAGTTTCATGAAATGTGTGCTAAAGTTGGAGTAGACCCCTTGGCCTCAAACAAGGGTTTCTGGTCAGA

upper sequence: AT4G27040.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv19s0090g00070.t01 (Vitis vinifera), 3'ss of exon 2
gtcgttatttgttgattcttttttatattttgttgttgttgtgtttgctgttgttttgtcatcgtcttgatttcgtaataagaacatgtagtttaataacattttcctgaatttgataaaattgtggtgaaaagaggcataattttttctttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGTGCTAACATTGGTGTGGATCCTCTTGCTTCTAACAAGGGTTTCTGGGCTG
                                                        |   || |  || | ||   || || || |  |  |   ||  |||| |  |||  |||| || ||     || |  || |     |  | |  ||||| ||||||||||||||| ||||| ||||| |||||  | ||||||||||| |||||||||||  | || || || ||  | || || || ||||| || ||||| |
------------------------------------------------------aatacaattgcttttacttataaaaaaaaaaaaatcatgatatttcattgtt-tgatgttgaaaatatgaaattgtactgaagt----tgatatggttggt-gcagAATGACATTCGCAAGAACCCTGCTTTCAGATCACAGTTCCATGAGATGTGTGCTAAAGTAGGAGTAGACCCCTTGGCATCGAATAAGGGATTTTGGGCAG
















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|116404485|gb|EG447077.1|EG447077
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404457|gb|EG447049.1|EG447049
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404471|gb|EG447063.1|EG447063
EST:     AGTTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404489|gb|EG447081.1|EG447081
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|164214477|gb|EL976001.1|EL976001
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTC
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTC
EST: gi|116404468|gb|EG447060.1|EG447060
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404480|gb|EG447072.1|EG447072
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404481|gb|EG447073.1|EG447073
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404466|gb|EG447058.1|EG447058
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404478|gb|EG447070.1|EG447070
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404474|gb|EG447066.1|EG447066
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404364|gb|EG446956.1|EG446956
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404464|gb|EG447056.1|EG447056
EST:     TAAACACCAAG                         AATGACATTCGTAAGAATCCCTGCCTTCAGGGCTCAGTTCCATGAAATGT
genomic: TAAACA-CAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAAT-CCTGCCTTCAGGGCTCAGTTCCATGAAATGT
EST: gi|116404356|gb|EG446948.1|EG446948
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAGG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404487|gb|EG447079.1|EG447079
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404482|gb|EG447074.1|EG447074
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404362|gb|EG446954.1|EG446954
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|164029608|gb|ES079656.1|ES079656
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCG
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCG
EST: gi|116404459|gb|EG447051.1|EG447051
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404490|gb|EG447082.1|EG447082
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAGG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404461|gb|EG447053.1|EG447053
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|124760471|gb|EH850601.1|EH850601
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTA
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTA
EST: gi|116404472|gb|EG447064.1|EG447064
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
EST: gi|116404455|gb|EG447047.1|EG447047
EST:     AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAG                         AATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT
genomic: AGCTCTCCACGTTCCGTTCCCAGCTTGAAGAGTTCGCTCGTAAACACAAGgtcgttattt ... ttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgaatttgataaaattgtggtgaaaagaggcataattttttctttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGTGCTAACATTGGTGTGGATCCTCTTGCTTCTAACAAGGGTTTCTGGGCTG
     atttgat  putative branch site (score: 5)
                                     ttttttctttggtt  putative PPT
                                 ataattttttcttt  TA-rich tract