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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGTCATGGACGGTCGTTTTGTTCCCAACATTACTATCGGACCTCTCGTGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagactagcttcttttcttatctttttctatatatggtttcttgatgtttgaagtcacatttctagttaataaagattctctaaaatcag

Basic information

species Arabidopsis thaliana
transcript AT5G61410.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G61410.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os03g07300.1 (Oryza sativa), 5'ss of exon 3
TGATGTCATGGACGGTCGTTTTGTTCCCAACATTACTATCGGACCTCTCGTGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagactagcttcttttcttatctttttctatatatggtttcttgatgtttgaagtcacatttctagttaataaagattctctaaaatcag---------
|||||||||||| || |||||||| || || || || ||||||||| | || ||||||||| |||| || || || |||||||| |||||||| |||||||||     |        ||  |    ||||   ||| |   | ||  |  |||    ||||  ||   | ||||   |  | | | |  | |          
TGATGTCATGGATGGACGTTTTGTGCCAAATATCACAATCGGACCTTTGGTTGTTGATGCTCTGCGGCCAGTCACTGATCTTCCGTTGGATGTGCATCTGgtacttcttgagaagccttactgaaattttaggtatttatgtgctgtaatttttctttcaccctt---gctaatttggcgtttgttatcttatttattgcag

upper sequence: AT5G61410.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G178960_T01 (Zea mays), 5'ss of exon 3
TGATGTCATGGACGGTCGTTTTGTTCCCAACATTACTATCGGACCTCTCGTGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaaga-ctagcttcttttcttatctttttctatatatggtttcttgatgtttgaagtcacatttctagttaataaagattctctaaaatcag-----
 |||||||||||||| || ||||| || || || || || |||||| | || ||||||||| |||| |||||||| |||||||| |||||||| |||||||||  |  ||     |     | |  |||||  |  |   ||   || ||   |||   | |  ||||   |      ||||   ||   |        
CGATGTCATGGACGGGCGCTTTGTGCCAAATATCACAATTGGACCTTTGGTTGTTGATGCTCTGCGTCCTGTGACTGATCTTCCATTGGATGTACATCTGgtattgttctcaaagccccagtcaggttttt--aggtgctgtactttcatccctgattgcccccttctgaatg-cggggatttcttatttttgtcacag

upper sequence: AT5G61410.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G026807_T01 (Zea mays), 5'ss of exon 3
TGATGTCATGGACGGTCGTTTTGTTCCCAACATTACTATCGGACCTCTCGTGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagac-tagcttcttttcttatctttttctatatatggtttcttgatgtttgaagtcacatttctagttaataaagattctc--taaaatcag--
|||||||||||| || || ||||| || ||||| || || |||||  | || ||||||||| |||| || ||||| |||||||| |||||||| |||||||||  | | | |   |     | |  |||||    || || |   || || | ||      |  ||||   |  | |   ||||   |   ||||   
TGATGTCATGGATGGGCGCTTTGTGCCAAACATCACAATTGGACCCTTGGTTGTTGATGCTCTGCGTCCAGTGACTGATCTTCCGTTGGATGTACATCTGgtactgtcctggaagccccagtcaggttttt----atgtgctacttttatctctggttgaccccttctgagtgctgagatttcttatttttatcacag

upper sequence: AT5G61410.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA05G00910.3 (Glycine max), 5'ss of exon 3
TGATGTCATGGACGGTCGTTTTGTTCCCAACATTACTATCGGACCTCTCGTGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagactagcttcttttcttatctttttctatatatggtttcttgatgtttgaagtcacatttctagttaataaagattctctaaaatcag
|||||| ||||| || ||||||||||| || ||||| || |||||||| ||||||||||| |||||||||||||||||||||||||||||||| || ||||||     |    | | ||  || |   | ||| ||   | |  |      |  |||| |  ||||| | |  ||  ||  | ||  |     
TGATGTAATGGATGGCCGTTTTGTTCCAAATATTACAATTGGACCTCTTGTGGTTGATGCATTGCGCCCTGTGACAGATCTTCCTTTGGATGTACACCTGgta----ttcatctttatttata-caaatactaaattaagctgatattgaatctaagtaat-tttctggcttctattgaaacactgtag----

upper sequence: AT5G61410.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA17G10990.3 (Glycine max), 5'ss of exon 3
TGATGTCATGGACGGTCGTTTTGTTCCCAACATTACTATCGGACCTCTCGTGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagactagcttcttttcttatctttttctatatatggtttcttgatgtttgaagtcacatttctagttaataaagattctctaaaatcag
|||||| ||||| ||||| |||||||| || ||||| || |||||||| ||||||||||| |||||||||||||||||||||||||||||||| || ||||||     |    | | | |  ||  |    || || || |||  |||  | | |  ||   | |    || ||  | |  || ||       
TGATGTAATGGATGGTCGCTTTGTTCCAAATATTACAATTGGACCTCTTGTGGTTGATGCATTGCGCCCTGTGACAGATCTTCCTTTGGATGTACACCTGgta----ttcatctttatacaaatactaaatta-atctgattt--tga-atctaagttcttttctgacttttattgaaacactgtag------

upper sequence: AT5G61410.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv17s0000g06450.t01 (Vitis vinifera), 5'ss of exon 3
TGATGTCATGGACGGTCGTTTTGTTCCCAACATTACTATCGGACCTCTCGTGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagactagcttcttttcttatctttttctatatatggtttcttgatgtttgaagtcacatttctagttaataaagattctctaaaatcag
|||||| ||||| ||||| |||||||| || || || || ||||||||| | || | ||| ||||||||||||||||||||||| |||||||| ||| |||||     |   | |||||  |   | ||  | | ||| |   ||||   | | |  |      |   || |||  | |  ||  |       
TGATGTAATGGATGGTCGCTTTGTTCCAAATATAACAATTGGACCTCTCATTGTCGGTGCCTTGCGCCCTGTGACAGATCTTCCATTGGATGTGCATTTGgta-----ttcttccttttgcttcttgttcatgtttattggg-cttgtattataatattttcactaaggtgaattgaaacactgcag------

upper sequence: AT5G61410.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S38_198V6.1 (Physcomitrella patens), 5'ss of exon 3
TGATGTCATGGACGGTCGTTTTGTTCCCAACATTACTATCGGACCTCTCGTGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagactagcttcttttcttatctttttctatatatggtttcttgatgtttgaagtcacatttctagttaataaagattctctaaaat-cag----------------------------------------------------------------------------------------------------------
||||||||||||||||||||| |||||||| || || ||||| ||||| || || || ||  | |||||||| || || || ||| | || || ||  |||| |  |    |  |||||    ||    |    || | ||| ||     | |  ||    || ||   || | |||  |  |    ||| ||                                                                                                           
TGATGTCATGGACGGTCGTTTCGTTCCCAATATCACAATCGGTCCTCTGGTTGTGGACGCCATTCGCCCTGTCACCGACCTACCTCTTGACGTCCACTTGgtcagcatcttcaccttttaa-gtcggactactcatgttgttcctcaccatgtcgagcttaatctc-gcttgagaaacttcttaaggaatgcaagtttctgcatacatccttgttggatgtttgtttcttttcttactgtatcgctagagaagttaatatcattccaaggtgtccaccttacgctgcttttgttcgtcag

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|116468994|gb|EG511586.1|EG511586
EST:     TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCG
genomic: TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCG
EST: gi|124885361|gb|EH964263.1|EH964263
EST:     ACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
genomic: ACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
EST: gi|124740334|gb|EH831496.1|EH831496
EST:     TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGA
genomic: TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGA
EST: gi|125273186|gb|EL287271.1|EL287271
EST:     TTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTACATCAAAGCAGG
genomic: TTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGG
EST: gi|124741846|gb|EH833008.1|EH833008
EST:     TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCA
genomic: TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCA
EST: gi|164000410|gb|ES134119.1|ES134119
EST:     TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCC
genomic: TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCC
EST: gi|116452333|gb|EG494925.1|EG494925
EST:     TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
genomic: TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
EST: gi|124836382|gb|EH920821.1|EH920821
EST:     TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAG
genomic: TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAG
EST: gi|124923163|gb|EL001383.1|EL001383
EST:     TGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
genomic: TGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
EST: gi|124779869|gb|EH869812.1|EH869812
EST:     TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCAT
genomic: TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCAT
EST: gi|124718164|gb|EH809566.1|EH809566
EST:     CTTTGGATGATCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
genomic: CTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
EST: gi|116420525|gb|EG463117.1|EG463117
EST:     TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
genomic: TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
EST: gi|116445743|gb|EG488335.1|EG488335
EST:     CTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
genomic: CTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
EST: gi|124991240|gb|EL063509.1|EL063509
EST:     CTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
genomic: CTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGCA
EST: gi|124783535|gb|EH873373.1|EH873373
EST:     TGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGC
genomic: TGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATCAAAGCAGGTGC
EST: gi|125072220|gb|EL136989.1|EL136989
EST:     GGTTGATGCTTTGTCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATC
genomic: GGTTGATGCTTTG-CGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGTACCGGATTTCATC
EST: gi|125189299|gb|EL204253.1|EL204253
EST:     TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTG                         ATGATAGTGGAACCCGAGCAGAGAGT
genomic: TGGTTGATGCTTTGCGCCCTGTGACAGATCTTCCTTTGGATGTTCATCTGgtaaagacta ... ctaaaatcagATGATAGTGGAACCCGAGCAGAGAGT