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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGATGCCTATTGTCGGAGCTATGACTCTGTTTGTCTCTCTTTTGACTTTTACTCTCCGAGTTCATCCTGATCGGCTTGACTATGTGGATCAAGTATTGgtatggtttcctttcgttgccatatgttttctaaacttttagtcagtattgtctctgtagcttgtatctctgtctacactatatgttcagattcagattttcattgtaaaggtgtaaaatgcatttttaaagttttatgattacttgaatctggtgtagccctggcgttaaactaattattgatccgaaaactttgtag

Basic information

species Arabidopsis thaliana
transcript AT1G75850.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G75850.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 5'ss of exon 11
TGAGATGCCTATTGTCGGAGCTATGACTCTGTTTGTCTCTCTTTTGACTTTTACTCTCCGAGTTCATCCTGATCGGCTTGACTATGTGGATCAAGTATTGgtatggtttcctttc---gttgccatatgttttctaaacttttagtcagtattgtctctgtagcttgtat-ctctgtctacactatatgttcagatt-cagattttcattgtaaaggtgtaaaatgcatttttaaagttttatgattacttgaatctggtgtagccctggcgttaaactaattattgatccgaaaactttgtag
||| |||||  |||| || ||  | ||| | | ||| || |||||||| ||||||||||| || ||||| ||||||||||| ||||| |||||||| |||||| |  ||| | |    |     | |  | | ||||   | ||||   ||| ||   ||||  || | | || | | || ||| | |   ||   | || ||                                                                                                     
TGACATGCCAGTTGTTGGTGCAGTAACTTTATATGTATCACTTTTGACATTTACTCTCCGTGTGCATCCGGATCGGCTTGATTATGTTGATCAAGTGTTGgtaagccttcttgtgtaggggaaaaaaaatctcctaactctatagt--atat-gtgcatgtaatttctgtactttatatatactttctccacaatctacaaat-----------------------------------------------------------------------------------------------------

upper sequence: AT1G75850.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM5G844195_T02 (Zea mays), 5'ss of exon 12
TGAGATGCCTATTGTCGGAGCTATGACTCTGTTTGTCTCTCTTTTGACTTTTACTCTCCGAGTTCATCCTGATCGGCTTGACTATGTGGATCAAGTATTGgtatggtttcctttcgttgccatatgttttctaaacttttagtcagtattgtctctgtagcttgtatctctgtctacactatatgttcagattcagattttcattgtaaaggtgtaaaatgcatttttaaagttttatgattacttgaatctggtgtagccctggcgttaaactaattattgatccgaaaactttgtag
||| |||||  |||| ||||| || ||||| | ||| || ||| |||| ||||||||||| || ||||||||||||||||| ||||| || |||||  ||||| |  ||| ||      | ||||| | | |   | ||   | |   |    |   |  ||       |  | |    | | || |   ||| | |    ||  | || | || ||  | ||||  |     |  |   | | ||||||||  |  |  | |    ||    |    |                    
TGACATGCCAGTTGTTGGAGCCATAACTCTATATGTATCACTTCTGACCTTTACTCTCCGTGTACATCCTGATCGGCTTGATTATGTTGACCAAGTGCTGgtaagtcttctttaaacaactatatgatgtatgccccttctcttatggtctgtttgctgactcagcaagccattttttgt-tgtgctataattgatag---caaggcaatgatgcaa--tccattagtggtagtacaatgtcaattgaatcttcta-actcattatatttgcttggacag-------------------

upper sequence: AT1G75850.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM5G825524_T02 (Zea mays), 5'ss of exon 11
TGAGATGCCTATTGTCGGAGCTATGACTCTGTTTGTCTCTCTTTTGACTTTTACTCTCCGAGTTCATCCTGATCGGCTTGACTATGTGGATCAAGTATTGgtatggtttcctttcgttgccatatgttttctaaacttttagtcagtattgtctctgtagcttgtatctctgt-ctacactatatgttcagattcagattttcattgtaaaggtgtaaaatgcatttttaaagttttatgattacttgaatctggtgtagccctggcgttaaactaattattgatccgaaaactttgtag
||| |||||  |||| |||||  | ||||| | ||| || ||| |||||||||||||||| || |||||||| |||||||| ||||| || |||||  | ||| |  ||| ||        ||||| ||| |   |  |  ||   |  || |||   |  |  | | | | |  |  ||||||       ||| | |    | | | || |  || |  |       ||| | | ||   ||| || |||||        | |    ||   ||    |                    
TGACATGCCAGTTGTTGGAGCCGTAACTCTATATGTATCGCTTCTGACTTTTACTCTCCGTGTACATCCTGACCGGCTTGATTATGTTGACCAAGTGCTCgtaagtcttctttaaacaattatatggtttatg--ccgtctgtt--tgctgactcaagaagtcatttttttttgttgtactata-------attgataggaacttaggaaggcagtgatgtaatccactaatggtctaatgttaattcaatctaac----tcgttatatttgtctggacag-------------------

upper sequence: AT1G75850.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA14G40270.1 (Glycine max), 5'ss of exon 11
TGAGATGCCTATTGTCGGAGCTATGACTCTGTTTGTCTCTCTTTTGACTTTTACTCTCCGAGTTCATCCTGATCGGCTTGACTATGTGGATCAAGTATTGgtatggtttcctttcgttgccatatgttttctaaacttttagtcagtattgtctctgtagcttgtatctctgtctacactatatgttcagattcagattttcattgtaaaggtgtaaaatgcatttttaaagttttatgattacttgaatctggtgtagccctggcgttaaactaattattgatccgaaaactttgtag
||| ||||||||||| ||||| ||  || ||  ||| |||||| | || ||||||||||| |||||||| ||||| ||||| |||||||| |||||| ||||||| || | ||       || |   ||| ||      |     ||  | |     |   ||| || |  | |||  ||  ||   ||  |   || |||    ||| ||                                                                                        
TGACATGCCTATTGTGGGAGCAATAGCTTTGCATGTTTCTCTTCTTACATTTACTCTCCGTGTTCATCCAGATCGACTTGATTATGTGGACCAAGTACTGgtatg-ttactttcaaacatcacaaccttttta------tgagatgtggtatggacatgaattgcattttag-ctaagctgcat---catttctggaattt----gtacag----------------------------------------------------------------------------------------

upper sequence: AT1G75850.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA17G37870.1 (Glycine max), 5'ss of exon 12
-TGAGATGCCTATTGTCGGAGCTATGACTCTGTTTGTCTCTCTTTTGACTTTTACTCTCCGAGTTCATCCTGATCGGCTTGACTATGTGGATCAAGTATTGgtatggtttcctttcgttgccatatgttttctaaacttttagtcagtattgtctctgtagcttgtatctctgtctacactatatgttcagattcagattttcattgtaaaggtgtaaaatgcatttttaaagttttatgattacttgaatctggtgtagccctggcgttaaactaattattgatccgaaaactttgtag
  || |||||||| || ||||| ||  || ||  ||| |||||| | || ||||||||||| |||||||| ||||| ||||| |||||||| |||||| ||||||| || | ||       || |   | | ||      |     ||  | |         ||| || |  |  ||  ||  ||  |    |   || |||   || |                                                                                           
ACGACATGCCTATCGTGGGAGCAATAGCTTTGCATGTTTCTCTTCTTACATTTACTCTCCGTGTTCATCCGGATCGACTTGATTATGTGGACCAAGTACTggtatg-ttactttcaaacatcacagcctcttta------tgagatgtggtatggacaagaattgcattttagctta-gctgcatcgtt---tctggaatttg--tgca-------------------------------------------------------------------------------------------

upper sequence: AT1G75850.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv18s0001g14680.t01 (Vitis vinifera), 5'ss of exon 11
TGAGATGCCTATTGTCGGAGCTATGACTCTGTTTGTCTCTCTTTTGACTTTTACTCTCCGAGTTCATCCTGATCGGCTTGACTATGTGGATCAAGTATTGgtatggtttcctttcgttgccatatgttttctaaacttttagtca-gtattgtctctgtagcttgtatctctgtctacactatatgttcagattcagattttcattgtaaaggtgtaaaatgcatttttaaagttttatgattacttgaatctggtgtagccctggcgttaaactaattattgatccgaaaactttgtag
||| |||||| || | ||||| || ||| | | |||||||||| | || |||||||| || |||||||||||||||||||| ||||||||||||||| |||||||  | ||      | | |  |   | || |   |  | |     || || |   || |   |     |       |||||   |    ||| |  |                                                                                                    
TGACATGCCTGTTTTTGGAGCAATAACTTTATATGTCTCTCTTCTTACATTTACTCTTCGTGTTCATCCTGATCGGCTTGATTATGTGGATCAAGTACTGgtatg--tccccaattatacaaagttcatgcttatgatccatttgcacatggttttgctaacgaatgctgatacacgatctataaaatt---ttctggctgctgc-----------------------------------------------------------------------------------------------

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|125079019|gb|EL141184.1|EL141184
EST:     GTGGATCAAGTATTG                         GGTGCATGTGTAGTTAAGCTTTCCAGTGTGCCCAAGCTGGAGGACGCCCGT
genomic: GTGGATCAAGTATTGgtatggtttc ... aactttgtagGGTGCATGTGTAGTTAAGCTTTCCAGTGTGCCCAAGCTGGAGGACGCCCGT