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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATGCGTTTATTGTCCCGGTGGACCTGACTCTGACTTTGAGTATAGTACTCAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAGgtgaagagtgtcttctgtgttatggaattgaaacttgtattacagcttctggattgatctagtaaagggtttggggtttaggtagttttgggtgaaattt...

Basic information

species Arabidopsis thaliana
transcript AT5G50320.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os04g40840.1 (Oryza sativa), 5'ss of exon 1
TATGCGTTTATTGTCCCGGTGGACCTGACTCTGACTTTGAGTATAGTACTCAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAGgtgaagagtgtcttctgtg--ttatggaattgaaacttgtattacagcttctggattgatctagtaaagggtttggggtttag-gtagttttgggtgaaattt
| ||||| || || ||||| || || ||||| ||||| ||||| || || ||||| ||||| || || ||||| ||||||||||| || |||||||| ||||||      ||    |    | |||  | |   |  |    |||  | | ||   ||| ||       | |      | ||| || ||||||    |     
TCTGCGTGTACTGCCCCGGAGGCCCCGACTCCGACTTCGAGTACAGCACCCAGTCCTACACCGGCTACGAGCCCACCAGCATGCGCGCCATTCGAGCAAGgtgatttacctcactggctactgatgtcacttggaaatactataccacctgtgagatgagctgcacggcgatgctttctctagtgttgttttgaagtatg---

upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA04G36790.1 (Glycine max), 5'ss of exon 1
TATGCGTTTATTGTCCCGGTGGACCTGACTCTGACTTTGAGTATAGTACTCAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAGgtgaag--------ag---tgtcttctgtgttatgg-aattgaaacttgtattacagcttctggattgatctagtaaagggtttggggtttaggtagttttgggtgaaattt
| ||||| || || ||||| ||||||||||| || || ||||| |||||||||||||||||||| || || || ||||||||||| || ||||| || ||||   |        ||   |||||||||||||| || || || ||||  | |||    |      ||||   |    |     |    | | | |  ||||           
TCTGCGTCTACTGCCCCGGGGGACCTGACTCCGATTTCGAGTACAGTACTCAGTCTTACACTGGTTACGAACCAACCAGCATGCGCGCAATTCGTGCGAGgtagggtttatgttagttttgtcttctgtgttagggtaaatggaactgattttaagagtgaatagttgagtcaaattaatccctatattct-gttgatttt-----------

upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA06G18150.1 (Glycine max), 5'ss of exon 1
TATGCGTTTATTGTCCCGGTGGACCTGACTCTGACTTTGAGTATAGTACTCAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAGgtgaag--------ag---tgtcttctgtgttatgg-aattgaaacttgtattacagcttctggattgatctagtaaagggtttggggtttaggtagttttgggtgaaattt
| ||||| || || ||||| ||||||||||| ||||| ||||| ||||| ||||||||||| || ||||| || ||||||||||| ||  |||| || ||||   |        ||   |||||| ||||||| || ||  ||||||  | |||    |      ||||   |    |     |    | | | |  ||||           
TCTGCGTCTACTGCCCCGGGGGACCTGACTCCGACTTCGAGTACAGTACCCAGTCTTACACCGGTTATGAACCAACCAGCATGCGTGCAGTTCGTGCGAGgtagggtttatgttagttttgtcttttgtgttagggtaaacgaaactgtttttaagagtgaatagttgagtcaaattaatccctatattct-gttgatttt-----------

upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv17s0000g10190.t01 (Vitis vinifera), 5'ss of exon 1
TATGCGTTTATTGTCCCGGTGGACCTGACTCTGACTTTGAGTATAGTACTCAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAGgtgaagagtgtcttctgtgttatggaattgaaacttgtatt-acagcttctggattgatct--agtaaagggtttggggtttaggtagttttg--ggtgaaattt
| || |||||||| || || |||||||| ||||| |||||||| ||||| ||||| ||||||||||| ||||| ||||||||||| || ||||| || |||| | |  | |  | |  ||| |    ||     ||||||| |   ||  | |  ||||    | | |  ||    ||   || ||  |||      ||||    
TTTGTGTTTATTGCCCTGGAGGACCTGATTCTGATTTTGAGTACAGTACACAGTCGTACACTGGATACGAGCCCACCAGCATGCGCGCGATTCGTGCTAGgt-agggtttttctttaggttttaattttatttgttgtattgatctctgtttggatgatgggaaatcataggaaaaggaactaagtcttttcattaatgaa----

upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EDO97260 (Chlamydomonas reinhardtii), 5'ss of exon 5
TATGCGTTTATTGTCCCGGTGGACCTGACTCTGACTTTGAGTATAGTACTCAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAGgtgaagagtgtcttctgtgttatggaattgaaacttgtattacagcttctggattgatctagtaaagggtttggggtttaggtagttttgggtgaaattt----------------------------
                     | || ||||| ||||||||||| || |||||||| ||||| || || ||||| ||||||||| | || || || ||  |||       | |   |  ||   || |  |      | | ||| ||||  ||  ||   |||       |  ||||  ||| | ||  || ||||                                 
---------------------GCCCCGACTCGGACTTTGAGTACAGCACTCAGTCGTACACGGGGTACGAGCCCACCAGCATGAGGGCCATACGGGCGCGGTA-----CGACCCGTACGTGCAGgtacgggcgtgcggagtacggcttggggggtg---tagccgtccatccggggggtag-tggtcgtgtgtgagggcaacgggttctgcgggcgctggtgggggca

upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S185_41V6.1 (Physcomitrella patens), 5'ss of exon 2
TATGCGTTTATTGTCCCGGTGGACCTGACTCTGACTTTGAGTATAGTACTCAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAGgtgaagagt-gtcttctgtgttatggaattgaaacttgtattacagcttctggattgatctagtaa-agggtttggggtttaggtagttt---tgggtgaaattt
| || ||||| || || || || || |||||||| ||||| || |||||||| || |||||||| || || ||||||||||||||||| || || || ||||   || | || |||     |||    ||   ||||   || |||||| | ||||  | |  |   | |   |     | |  ||||||   |   |||     
TTTGTGTTTACTGCCCTGGAGGGCCGGACTCTGATTTTGAATACAGTACTCAATCATACACTGGTTACGAACCTACCAGCATGCGAGCCATCCGGGCGAGgtatggatttgtattcgaacctataaccttttcactt---ttgcagctttttgatttttattctcctatgacgtccacctaatctagtttcattaactgagga--

upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ21486 (Selaginella moellendorffii), 5'ss of exon 1
TATGCGTTTATTGTCCCGGTGGACCTGACTCTGACTTTGAGTATAGTACTCAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAGgtgaagagtgtcttctgtgttatggaattgaa-acttgtattacagcttctggattgatctagtaaagggtttggggtttaggtagttttgggtgaaattt
| || || || || || || || || || || ||||| || ||||| || ||||| |||||||| ||||| || || ||||||||||| |||||||| |||| ||   | |  ||| | | ||    ||     || | |  | |   |   |                                                
TCTGTGTCTACTGCCCGGGAGGCCCAGATTCGGACTTCGAATATAGCACACAGTCCTACACTGGGTATGAACCAACGAGCATGCGAGCAATTCGAGCAAGgtaaattctatagtctttttcatttctttttttgctagcaaaaaaaaattcag------------------------------------------------

upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ27078 (Selaginella moellendorffii), 5'ss of exon 1
TATGCGTTTATTGTCCCGGTGGACCTGACTCTGACTTTGAGTATAGTACTCAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAGgtgaagagtgtcttctgtgttatggaattgaaacttgtattacagcttctggattgatctagtaaagggtttggggtttaggtagttttgggtgaaattt
| || || || || || || || || || || ||||| || ||||| || ||||| |||||||| ||||| || || ||||||||||| |||||||| |||| ||   | |  ||| | | ||    ||    ||| | || |         |   |||                                         
TCTGTGTCTACTGCCCGGGAGGCCCAGATTCGGACTTCGAATATAGCACACAGTCCTACACTGGGTATGAACCAACGAGCATGCGAGCAATTCGAGCAAGgtaaattctatagtctttttcat----tt----ctttttttgctagcaaaaaaaaaatcag---------------------------------------

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|301501204|gb|HO206744.1|HO206744
EST:     CAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAG                         GTACAATCCATATGTTCAGGCAAGAAGCAGGATAGATCAGCTGAAGCGGTT
genomic: CAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAGgtgaagagtg ... atggtcttagGTACAATCCATATGTTCAGGCAAGAAGCAGGATAGATCAGCTGAAGCGGTT
EST: gi|163995707|gb|EL998894.1|EL998894
EST:     CAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAG                         GTACAATCCATATGTTCAGGCAAGAAGCAGGATAGA
genomic: CAGTCTTACACTGGATATGAGCCTACCAGCATGCGAGCTATTCGAGCCAGgtgaagagtg ... atggtcttagGTACAATCCATATGTTCAGGCAAGAAGCAGGATAGA