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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatacttactttttgcttggtttcaacaatttcacatttttcgaaagttcacatttttaacattcatatgtgtaatgtgacagGTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGGTGTCGAAGCTCTTCAATGTTCCTTTACTAAATGTCACAACATCGTTTGT

Basic information

species Arabidopsis thaliana
transcript AT2G38330.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G38330.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM5G890665_T02 (Zea mays), 3'ss of exon 1
--------------gtaa-atacttactttttgcttggtttcaacaatttcacatttttcgaaagttcacatttttaacattcatatgtgtaatgtgacagGTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGGTGTCGAAGCTCTTCAATGTTCCTTTACTAAATGTCACAACATCGTTTGT
               ||| | | ||       |   ||||| |  ||      |    || ||  ||  ||    |   ||   |  | ||    |  ||||||| ||  || | || || || || |  ||   |||  ||||||||||||| || ||||| || ||||| ||  |||| |||||||||||||| |||||
tgctcttggcctagataacaaaattgggaacagaccggttttagtaaaaattaaggagtc-aaccttttcacccatttgatgagttagagtctcttctcagGTTCAGCTCAACTTGCGGCTGTTGGTGCATCTACTTCCATATTCAATTTGGTATCCAAGCTGTTTAATGTGCCGCTACTTAATGTCACAACATCCTTTGT
















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|86064741|gb|DR360498.1|DR360498
EST:     TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTG                         GTTCTGCGGAATTA
genomic: TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTGgtaaatactt ... aatgtgacagGTTCTGCGGAATTA
EST: gi|86064735|gb|DR360492.1|DR360492
EST:     TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTG                         GTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG
genomic: TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTGgtaaatactt ... aatgtgacagGTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG
EST: gi|86064736|gb|DR360493.1|DR360493
EST:     TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTG                         GTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG
genomic: TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTGgtaaatactt ... aatgtgacagGTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG
EST: gi|19876049|gb|AU236880.1|AU236880
EST:     TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTG                         GTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG
genomic: TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTGgtaaatactt ... aatgtgacagGTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG
EST: gi|86064739|gb|DR360496.1|DR360496
EST:     TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTG                         GTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG
genomic: TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTGgtaaatactt ... aatgtgacagGTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG
EST: gi|86064738|gb|DR360495.1|DR360495
EST:     TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTG                         GTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG
genomic: TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTGgtaaatactt ... aatgtgacagGTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG
EST: gi|86064740|gb|DR360497.1|DR360497
EST:     TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTG                         GTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG
genomic: TGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTTGGCCATATTGgtaaatactt ... aatgtgacagGTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttcacatttttcgaaagttcacatttttaacattcatatgtgtaatgtgacagGTTCTGCGGAATTAGCTGCAGTAGGAGTGTCAGTTTCTGTATTCAATTTGGTGTCGAAGCTCTTCAATGTTCCTTTACTAAATGTCACAACATCGTTTGT
                          ttttaac  putative branch site (score: 2)
                        atttttaacattcata  TA-rich tract