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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatctgttttttttccctgattcgttaatggagaatctctgttttgattggtctctctaacgatgtgctttgtttctcgtgtttttcaacttctcagctttgatggtaagtgcattgtccttttcttattgtgttcttctcttttaagcttttttttgttaatggtttttgaagaaacgttttttgtttctacttag

Basic information

species Arabidopsis thaliana
transcript AT4G35740.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G35740.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os02g54020.1 (Oryza sativa), 5'ss of exon 3
TGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatctgttttttttccctgattcgttaatggagaatctctgt-tttgattggtctctcta-acgatgtgctttgtttctcgtgtttttcaacttctcagctttgatggtaagtgcattgtccttttcttattgtgttcttctcttttaagcttttttttgttaatggtttttgaagaaacgttttttgtttctacttag
|||||||| ||||||||||| ||||| |||||||| || || |||||||| |||||  |||  ||  | || || || |||||| | || || ||||| ||| |||   |        | | | |  ||    || ||     ||  ||||    | |   || || |   ||||   ||    || ||   || |   | |||| |                                                                                               
TGCTTTTGTTTGATGCCAACTGGAGGTGGAAAATCAATGTGCTATCAGATTCCTGCTCTAGTGAAGTCAGGCATTGTTCTTGTTATCTCACCCTTGATAGgtgaattgatccaccaaacttcagttatttccagaaaaaaatagtacttgacaaatgtgcatatactaatagcttc--ttgatatggttgaaaaatctgctgcttag-----------------------------------------------------------------------------------------------

upper sequence: AT4G35740.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA09G08180.1 (Glycine max), 5'ss of exon 2
TGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatctgttttttttccctgattcgttaatggagaatctctgttttgattggtctctctaacgatgtgctttgtttctcgtgtttttcaacttctcagctttgatggtaagtgcattgtccttttcttattgtgttcttctcttttaagcttttttttgttaatggtttttgaagaaacgttttttgtttctacttag
|| |||||  | |||||||| |||||||| || ||||| ||||||||||| |||||||| || ||| | || || || ||||| || |  ||||| || ||| ||||     || |||  | ||   ||     |   | ||||   | ||||  ||   |    ||   ||| ||||   ||| |     || | | |  | |||   |   | |  || |                                                                              
TGTTTTTGTCTTATGCCAACTGGAGGAGGCAAGTCGATGTGTTATCAGATCCCTGCATTGGCAAAAGCAGGCATTGTGCTTGTCGTTTGCCCTTTAATAGgtgaatca--cattcttcttttataaattttgtaactttttctgagcttattg--ctgcttggtaattcacttagttttgtgtgctaggacacatgtgatttctgacttttgttcctctgacag----------------------------------------------------------------------------

upper sequence: AT4G35740.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv11s0016g00850.t01 (Vitis vinifera), 5'ss of exon 2
TGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatc-tgttttttttccctgattcgttaatggagaatctctgttttgattggtctctctaacgatgtgctttgtttctcgtgtttttcaacttctcagctttgatggtaagtgcattgtccttttcttattgtgttcttctcttttaagcttttttttgttaatggtttttgaagaaacgttttttgtttctacttag
|| |||||  | |||||||| ||||||||||| || || ||||||||||| |||||| | || ||||| || || || || || || | |||||| || ||| |||  | ||| | ||   | |||  || |      ||||  |       |     | |  | ||| |  || |||||   ||     |||   | ||||| | || |    ||  | || ||    || |||    |                                                             
TGTTTTTGTCTCATGCCAACAGGAGGAGGAAAGTCAATGTGTTATCAGATTCCTGCACTGGCAAAACCAGGGATTGTGCTCGTGGTTTGTCCTTTAATAGgtgaatggtatttatgttatgtaatt--ttgac-----atcttagaggaagcttaagccacctaagattt--ttcgtttcaaatg-----caaggacacagctctaattgcttttgt-tggttctccattttttgctcacag-----------------------------------------------------------

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|19876818|gb|AU237649.1|AU237649
EST:     ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTG                         C
genomic: ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatctgt ... ttctacttag-
EST: gi|19876818|gb|AU237649.1|AU237649
EST:     ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTG                         C
genomic: ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatctgt ... ttctacttag-
EST: gi|19876818|gb|AU237649.1|AU237649
EST:     ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTG                         C
genomic: ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatctgt ... ttctacttag-
EST: gi|19876818|gb|AU237649.1|AU237649
EST:     ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTG                         C
genomic: ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatctgt ... ttctacttag-
EST: gi|19876818|gb|AU237649.1|AU237649
EST:     ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTG                         C
genomic: ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatctgt ... ttctacttag-