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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcaatttagattcaatatcaattttctttctattgttctggcaaagaaactcttagatcaaattgctgatgactcgattccgactgttttaacatcctgatttctatgtttttttcccctgattatagGCTGTATGGGCATTGGGAAACGTTGCTGGTGACTCGCCAAAATGTCGTGATCATGTCCTAAGTTGTGAGGCTATGATGTCTCTTCTGGCTCAATTCCATG

Basic information

species Arabidopsis thaliana
transcript AT1G02690.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G02690.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 4
gtatcaatttagattcaatatcaattttctttctattgttctggcaaagaaactcttagatcaaat-tgctgatgactcgattccgactgttttaacatcctgatttctatgtttttttcccctgattatagGCTGTATGGGCATTGGGAAACGTTGCTGGTGACTCGCCAAAATGTCGTGATCATGTCCTAAGTTGTGAGGCTATGATGTCTCTTCTGGCTCAATTCCATG
|||||   | |  | |    |    ||| |   |  ||| ||  |     |    || |||  | |    || ||     |||   | |||||| || || |||     |               |||  ||||||||||||||||||| || ||||||||||| || || || || ||||| | ||| ||      ||  ||  || || |||| || || || ||  |||
gtatccgatcatctcctgacttgtctttgtgctttctgtacttccttgatattattttgattgagtgcattgttggagttatt---aatgtttttacctcttgaaaaaaa---------------attgaagGCTGTATGGGCATTGGGCAATGTTGCTGGTGATTCCCCTAAGTGCCGTGACCTTGTTCTTGCCAATGGTGCATTGCTGCCTCTGCTAGCACAGTTGAATG

upper sequence: AT1G02690.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 4
---------gtatcaatt--tagattcaatatcaattttctttctattgttctggcaaagaaactcttagatcaaattgctgatgactcgattccgactgtt--ttaacatcctgatttctatgtttttttcccctgattatagGCTGTATGGGCATTGGGAAACGTTGCTGGTGACTCGCCAAAATGTCGTGATCATGTCCTAAGTTGTGAGGCTATGATGTCTCTTCTGGCTCAATTCCATG
           | ||  |   || ||||    |   | | ||  |  |||  | |||  | | |||     |||  |  |  ||   ||  | || |    |  | |  |   |||  | | |  ||||  |   |   | ||||||||||||||||| ||||| |||||||||||||| || |||||||| |||| ||||||  |   || |||  ||||| || |  ||||||||||| |||
gtatatattaaaacagatgacaggttcatccccgcatgttttcttgatgtgtttgcattgcagctc---agtcagttgtcaaatagttcattgcctataagtgatgaggaatttgagctttttagttttgccttttttctgtagGCTGTATGGGCATTAGGAAATGTTGCTGGTGACTCACCCAAATGTCGAGATCTTGTCCTTGGCCATGGGGCCTTGATGCCTTTGATGGCTCAATTCAATG

upper sequence: AT1G02690.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S165_54V6.1 (Physcomitrella patens), 3'ss of exon 4
gtatcaatttagattcaatatcaattttctttctattgttctggcaaagaaactcttagatcaaattgctgatgactcgattccg-actgttttaacatcctgatttctatgtttttttcccctgattatagGCTGTATGGGCATTGGGAAACGTTGCTGGTGACTCGCCAAAATGTCGTGATCATGTCCTAAGTTGTGAGGCTATGATGTCTCTTCTGGCTCAATTCCATG
                             ||   |||||  |    |   |  |      |||   |  ||  |||| |||| |   |||        | | || ||   ||||  | | | ||    | ||||||||||||| |||||||||||||||||||| ||||| ||||| ||||| | |||  || ||  || |||  ||||| |||| || || ||  |    |
---------------------------gtttcacattgtgatctttagctaggt-----gtcatgcttttgtcgactggatttcatgctgaccagttgtgccgacttgactgttaatattctctttgaacagGCTGTATGGGCTTTGGGAAACGTTGCTGGTGATTCGCCGAAATGCCGTGACCTTGTTTTAGGTCATGGGGCCTTGATGCCTCTGCTTGCGCAGCTTACGG

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|164018212|gb|ES114203.1|ES114203
EST:     CGTCAAACTTCTTAGTTCTGCAAGTGAGGAAGTTCGAGAACAG                         GCTGTATGGGCATTGGGAAACGTTGCTGGTGACTCGCCAAAATGTCGTGAT
genomic: CGTCAAACTTCTTAGTTCTGCAAGTGAGGAAGTTCGAGAACAGgtatcaattt ... ctgattatagGCTGTATGGGCATTGGGAAACGTTGCTGGTGACTCGCCAAAATGTCGTGAT
EST: gi|86068466|gb|DR364223.1|DR364223
EST:     GTTCTGCAAGTGAGGAAGTTCGAGAACAG                         GCTGTATGGGCATTGGGAAACGTTGCTGGTGACTCGCCAAAATGTCGTGAT
genomic: GTTCTGCAAGTGAGGAAGTTCGAGAACAGgtatcaattt ... ctgattatagGCTGTATGGGCATTGGGAAACGTTGCTGGTGACTCGCCAAAATGTCGTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgattccgactgttttaacatcctgatttctatgtttttttcccctgattatagGCTGTATGGGCATTGGGAAACGTTGCTGGTGACTCGCCAAAATGTCGTGATCATGTCCTAAGTTGTGAGGCTATGATGTCTCTTCTGGCTCAATTCCATG
                           tttctatgtttttttc  CT-rich tract
                          atttctatgttttttt  TA-rich tract