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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagactcttgtgcagagagcttggttttttctttcttccttttattggtttcgctagcaaaagattaattctttattgttgtttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGACTGCTTGCCTCAAAGGATCGATCACAAAAGCCTTTTGCTTGCAGTTCACA

Basic information

species Arabidopsis thaliana
transcript AT4G26850.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G26850.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G10430.1 (Glycine max), 3'ss of exon 4
gtaaagactcttgtgcagagagcttggttttttctttcttccttttattggtttcgctagcaaaagattaattctttattgttgtttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGACTGCTTGCCTCAAAGGATCGATCACAAAAGCCTTTTGCTTGCAGTTCACA
 |  |   |  | |  | | ||       |    | | |   |   || |||   | |   |  | | |  ||| || |   | |||||||||||| ||||| || || ||||| ||||||||||||||||| ||  || |||| || || ||||||||||| || ||   |||| | ||||||||| ||||  
-tgtaagtttcttttaaaaaagtcc----tccagtctgtcagtaaaataggt---gtttatatgatactt-ttccttgtacctttttttaacaGGTGAGTCCTATTGAATATGGGCATGTGCTGCTGATTCCACGGATTTTTGAGTGTTTACCTCAAAGGATTGACCATGCAAGCTTCTTGCTTGCACTTCAA-

upper sequence: AT4G26850.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G43200.1 (Glycine max), 3'ss of exon 5
gtaaagactcttgtgcagagagcttggttttttctttcttccttttattggtttcgctagcaaaagattaattctttatt--gttgtttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGACTGCTTGCCTCAAAGGATCGATCACAAAAGCCTTTTGCTTGCAGTTCACA
||||      |           ||    | ||| |   |     ||| |    | | |    | |   || || | | |     | |||||||||||| ||||| || || ||||| ||||||||||||||||| |   || |||| || || ||||||||||| || ||   |||| | ||||||||| |||| |
gtaagtttcttgaatttttttcctccagtctttgtcattgagggttagtaaaataggtgtttatatgatacttttctgtgtacctttttttaacagGTGAGTCCTATTGAATATGGGCATGTGCTGCTGATTCCACAGATTTTTGAGTGTTTACCTCAAAGGATTGACCATGCAAGCTTCTTGCTTGCACTTCAAA
















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|124724826|gb|EH816228.1|EH816228
EST:     CCCTGAGAATTCTCCCAGTGTTGTTGCCATCAAT                         GTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
genomic: CCCTGAGAATTCTCCCAGTGTTGTTGCCATCAATgtaaagactc ... tttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
EST: gi|124844500|gb|EH928937.1|EH928937
EST:     GACCCTGAGAATTCTCCCAGTGTTGTTGCCATCAAT                         GTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
genomic: GACCCTGAGAATTCTCCCAGTGTTGTTGCCATCAATgtaaagactc ... tttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
EST: gi|124771223|gb|EH861353.1|EH861353
EST:     TCCCAGTGTTGTTGCCATCAAT                         GTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
genomic: TCCCAGTGTTGTTGCCATCAATgtaaagactc ... tttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
EST: gi|124952444|gb|EL027714.1|EL027714
EST:     CCAGTGTTGTTGCCATCAAT                         GTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
genomic: CCAGTGTTGTTGCCATCAATgtaaagactc ... tttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
EST: gi|124971543|gb|EL045302.1|EL045302
EST:     ACCCTGAGAATTCTCCCAGTGTTGTTGCCATCAAT                         GTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
genomic: ACCCTGAGAATTCTCCCAGTGTTGTTGCCATCAATgtaaagactc ... tttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
EST: gi|125053925|gb|EL124845.1|EL124845
EST:     AATTCTCCCAGTGTTGTTGCCATCAAT                         GTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
genomic: AATTCTCCCAGTGTTGTTGCCATCAATgtaaagactc ... tttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
EST: gi|124907665|gb|EH981745.1|EH981745
EST:     TTCTCCCAGTGTTGTTGCCATCAAT                         GTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
genomic: TTCTCCCAGTGTTGTTGCCATCAATgtaaagactc ... tttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGAC
EST: gi|124706004|gb|EH797406.1|EH797406
EST:     CTTGCATGCCTATTGACCCTGAGAATTCTCCCAGTGTTGTTGCCATCAAT                         GTTAGTCCGATAGAGTATGGCCATGTGCTGCT
genomic: CTTGCATGCCTATTGACCCTGAGAATTCTCCCAGTGTTGTTGCCATCAATgtaaagactc ... tttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccttttattggtttcgctagcaaaagattaattctttattgttgtttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGACTGCTTGCCTCAAAGGATCGATCACAAAAGCCTTTTGCTTGCAGTTCACA
                          gattaat  putative branch site (score: 3)
                                          ttgttttt  putative PPT
                      aaaagattaattcttt  TA-rich tract