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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctgtatttcgcaaatacttgttttctactaacaacatattactgtttcttgatattttttcctggtctagGTACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAA

Basic information

species Arabidopsis thaliana
transcript AT1G25350.2
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: LOC_Os05g08990.1 (Oryza sativa), 3'ss of exon 17
-----------------------------------------------------------------------------gtaagctgtatttcgcaaat---acttgttttctactaacaacatattactgtt----tcttgatattttttcctggtctagGTACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAA
                                                                              |   ||     ||  | ||   ||   ||    | ||  |    || |||  |    |  ||  | | |   |    |||||| || ||||| |||  ||| ||||| || || ||||| || ||  | |||||||||||||||||||||||||| || ||||||||| | ||  | ||||
gtaattcttatgtctgaatgacttaatcattttgagaattaaaaatctggtttagtggttacagagtccctttggttctgcacttctgctcaaagattagacacattgagcaatataagttcatcacttctctgattctggaactgtggtcatccctagGTTCCATTCTCAAGAACTGTCTACATCGAGCAGTCTGATTTTCGTGTAAAGGATTCAAAAGATTATTATGGGCTTGCTCCTGGTAAAACAGTACTACTAA

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GRMZM2G032049_T01 (Zea mays), 3'ss of exon 17
------------------------------------------------------------------gtaagctgtatttcgcaaat--acttgttttctactaa--caacatatt--actgtttcttgatattttttcctggtctagGTACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAA
                                                                  | ||   | | |||  || |  |||   |    |  ||  |  |||| |  |  | |   | | ||||| |  |  |  |||| |||||||| |||  ||| ||||||||  || |||| || ||  | ||||| |||||||| || |||||||| |||||||||||||||||  ||||||
gtacctctcatttccggtgtacaacacaagaacaacatcatcaacttaaaatgctgtgtgaaatctgcaataaggacttcataagttcactctatggacatcaaatcttcatactgaatagatgtatcaaattttcttttattgcagGTTCCGTTCTCAAGAACTGTCTACATTGAGAAAACTGATTTTCGCCTAAAGGACTCAAAAGACTACTATGGGCTAGCCCCTGGTAAATCTGTCATGCTAA

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GRMZM2G048012_T01 (Zea mays), 3'ss of exon 16
------------------gtaagctgtatttcgcaaatactt-gttttctactaacaacatatt---actgtttcttgatatt---ttttcctggtctagGTACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAA
                  | || ||| | |  | |  || |  |||  ||    |  | || ||   ||||  |     ||||   ||||| |  |  || | |||||||| |||  ||| ||||||||  || |||| || ||  | ||||| |||||||| || |||||||| |||||||||||||||||  ||||||
cgttcccaaatgctgtgtgaaatctgcaataaggagttaataagttcactggacatcaaatcttcatactgaatagctgtattaaattttcttattgcagCTTCCGTTCTCAAGAACTGTCTACATTGAGAAAACTGATTTTCGCCTTAAGGACTCAAAAGACTACTATGGGCTGGCCCCTGGTAAATCTGTCATGCTAA

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA20G25120.2 (Glycine max), 3'ss of exon 18
---------------------gtaagctgtatttcgca-aatacttgttttctactaacaacatattactg-tttcttgatattttttcctggt--ctagGTACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAA
                     |  |     | |||  |  ||  | ||   ||  |      ||  | ||| |||  || | || |    | ||   ||| | || || || |  |||||||| ||||| || || |||||||| ||| | |||||||||||||||||||| || || ||||| ||||||||  | || |
tgtattgttaagctttatcatggtattaccacttcatatgatgttggtaggcttatgtttgtatgcttctgattttatgttgttatgcatttgttcttagATTCCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCA

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 18
---------------------------------------------------------------------------------------------------------gtaagctgt--atttcgca-aatacttgttttctactaacaacatattactgtttcttgatattttttcctggt--ctagGTACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAA
                                                                                                          ||   | |  | |||  |  ||  | ||   ||  |      || |  ||  || ||  | |  |    | ||   ||| |  | || || |  |||||||| ||||| || || |||||||| ||| | |||||||||||||||||||| || || ||||| ||||||||  | || |
gtgaaattgaacttgtgaaaactggtatctttaggcagtgttatggttttaggaaatcttgttgcagaaactagttgtacccaacttttgtcctatgatgattcaatatcttattaacttcatatgatgttggtaggcttatgtttgtatgtgtcttattttttttgtcatgcatttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCA

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 18
-----------------gtaagctgtatttcgcaaatacttgtttt--ctactaacaacatattactgttt--cttgatattttttcc----tggtctagGTACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAA
                  ||  ||||  |   |  |||     | |  ||  ||       ||| |||  |   ||   ||||||  |    |  | ||||| || || ||||   |||| |||||||| ||  |||| || || ||||| ||||| |||||||| |||||||| || ||||||||||||||  |||| |
ttttccaattttgatcactatactgttctgatcctatatcaaatattgctgttagtgttggatttctgagtgattttgcatttttctccccttcctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv15s0021g01230.t01 (Vitis vinifera), 3'ss of exon 18
-------------------------------gtaag-ctgtatttcgcaaatacttgttttctactaacaacatattactgtttcttgatattttttcctggtctagGTACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAA
                               ||||  |  ||||    |  |   ||||||  |||  ||| | |||  | | | ||| | ||||       | ||||| || || || | | ||||||||||||| || ||||| || || ||||||||||||||||| || |||||||| || ||||| ||||| ||  | || |
tggcaaagtagaggaacctaccattaactatgtaactccatattcaagacttggatgttttaaactgtcaata-att--tttcttttgctgttttcat----tttagGTGCCCTTTTCCAAAATTGTATACATTGAGCAGTCTGATTTTCGGATGAAGGATTCAAAAGACTACTATGGGCTTGCTCCTGGAAAATCCGTCCTACTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgttttctactaacaacatattactgtttcttgatattttttcctggtctagGTACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAA
                                       ttttttcctggtct  CT-rich tract
                             tttcttgatatttttt  TA-rich tract