Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatttagtcaattttgtgatgtctatgattttccccggtttgggaaatagttggggttgaattttgtggatgaacttaaaatggttgctacagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT

Basic information

species Arabidopsis thaliana
transcript AT4G24740.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os12g27520.4 (Oryza sativa), 3'ss of exon 5
gtaagtatttagtcaattttgtgatgtctatgattttccccggtttgggaaatagttggggttgaattttgtggatgaacttaaaatggttgcta-cagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT
|||||||  |  | |  ||  ||     |||||  |  ||      |  ||     ||  | | ||     | | |||| || ||  | | |    ||||| | ||||||||||||| | || ||||| |||||||| |||||||||| ||| ||||| || || ||||  || || || ||| ||| |   ||||| |
gtaagtacatcattagatt-atggcaattatgaactaaccaaaagagataaccccatgaagcttaaac--attggtgaatttgaatggatggtgggcagGTCTGTGAGAAGCTTGGACCAAGCTTATATGATTTTCTGCGGAAAAACAGTTACCGCTCATTCCCAATTGCCCTAGTTCGGGAGGTTGCCAAACAACTGT

upper sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G063792_T04 (Zea mays), 3'ss of exon 5
gtaagtatttagtcaattttgtgatgtctatgattttccccggtttgggaaatagttggggttgaattttgtggatgaacttaaaatggttgcta-cagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT
|||||||  | || |  ||  |||    ||||   |  |||        ||  |  ||| | | ||    || | |||| ||  | |  | |  | ||||| ||||||| ||||||| | || ||||| ||||||||  ||||||||||||| ||||| || || ||||  || || || ||| ||| |   ||||| |
gtaagtacattgttagatt-atgacaattatgcactgacccaaaaatataaccatatggtgcttaaac--gttggtgaatttggattaatggtgagcagGTCTTTGAGAGGCTTGGACCAAGCTTATATGATTTTCTGAGGAAAAACAATTACCGCTCATTCCCAATTGCCCTAGTTCGGGAGTTTGCCAAACAACTGT

upper sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G36360.1 (Glycine max), 3'ss of exon 4
gtaagtatttagtcaattttgtgatgtctatgattttccccggtttgggaaatagttggggttgaattttgtggatgaacttaaaatggttgctacagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT
||||||||||  |  |||| ||||||   ||   |||||||  | |   | ||| | |||||| |       || |||| | ||| ||||||| |||||| |||||||| |||||| | || ||||||||||||||||||||||||| |||||| || |||||||||||||||||||||||||||||||||||||| |
gtaagtatttgattgattt-gtgatgg--attgatttccccaatat---acataatgggggttaa-------gggtgaattcaaa-tggttgcaacagGTGTTTGAGAAACTTGGACCAAGCTTATACGATTTTCTTCGGAAAAACAGTTATCGTTCATTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTGT

upper sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G18530.1 (Glycine max), 3'ss of exon 4
gtaagtatttagtcaattttgtgatgtctatgattttccccggtttgggaaatagttggggttgaattttgtggatgaacttaaaatggttgctacagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT
||||||||||  |  |||| ||||||   ||   |||||||  | |   | ||| | |||||| |       || |||| | ||| ||||||| |||||| |||||||| |||||| | || ||||||||||||||||||||||||| |||||| || |||||||||||||||||||||||||||||||||||||| |
gtaagtatttgattgattt-gtgatgg--attgatttccccaatat---acataatgggggttaa-------gggtgaattcaaa-tggttgcaacagGTGTTTGAGAAACTTGGACCAAGCTTATACGATTTTCTTCGGAAAAACAGTTATCGTTCATTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTAT

upper sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA17G13440.2 (Glycine max), 3'ss of exon 4
gtaagtatttagtcaattttgtgatgtctatgattttccccggtttgggaaatagttggggttgaattttgtggatgaacttaaaatggttgctacagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT
||||||||||| |     ||||||||   || |||| ||||  |||   ||  | |||||| | ||       | |||| ||||| |||||   |||||| |||||||| |||||| | || ||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||| | ||||| |
gtaagtatttaat-----ttgtgatgga-atcattt-ccccaatttacaaataatttgggggttaagacaacag-tgaatttaaa-tggttttaacagGTGTTTGAGAAACTTGGACCAAGCTTATACGATTTTCTTCGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTAT

upper sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G02740.3 (Glycine max), 3'ss of exon 4
gtaagtatttagtcaattttgtgatgtctatgattttccccggtttgggaaatagttggggttgaattttgtggatgaacttaaaatggttgctacagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT
||||||||||| |     ||||||||   || |||| ||||  |||   ||  | |||||| | ||      || |||| ||||| |||||   |||||| |||||||| |||||| | || ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||   ||||| |
gtaagtatttaat-----ttgtgatgga-atcattt-ccccaatttacaaataatttgggggttaagacaacgg-tgaatttaaa-tggttttaacagGTGTTTGAGAAACTTGGACCAAGCTTATACGATTTTCTTCGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAAACAACTAT

upper sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtatttagtcaattttgtgatgtctatgattttccccggtttgggaa-atagttggggttga-attttgtggatgaacttaaaatggttgctacagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT
||||||||  | |  | ||  ||||| || |||||| |||   ||   ||| ||  | |||||| | | |||||||||||| || |||||||| | |||||| ||||||||||||||| | || |||||||||||||| |||||||||||||||||||| |||||||||||||||||||||||||||||| | ||||| |
gtaagtataaaattgaatt-atgatggct-tgatttccccaatttcacgaatattttgggggttaagactttgtggatgaa-ttcaaatggtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT

upper sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S100_121V6.1 (Physcomitrella patens), 3'ss of exon 7
gtaagtatttagt-caattttgtgatgtctatgattttccccggtttgggaaata-gttggggttgaattttgtggatgaacttaaaatggttg---ctacagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT
 |    ||  ||| ||  | | | || | | |    | ||  | | | ||   |   ||     | |   |  ||  ||   | ||| ||| |     | ||||| | ||| |  || ||| |||| ||||||||||| ||||| ||||||||||||||  | ||| |    ||||| || || ||  ||||| | || || |
ttctagatacagttcaggtgtataat-tatgtccaatcccttgttcttggccttgcatttatagtaatggtcatgattg--ttcaaactgggtaatcttgcagGTTTGTGAAAGACTAGGACCGAGCTTATACGATTTCCTTCGAAAAAACAATTATCGACCATTTTCTGCAGATCTCGTTCGCGACTTTGGCCGCCAGCTGT

upper sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S425_6V6.2 (Physcomitrella patens), 3'ss of exon 5
---gtaagtatttagtcaattttgtgatgtctatgattttccccggtttgggaaatagttggggttgaattttgtggatgaacttaaaatggttgctacagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT
     | | |||    || |    |  ||  ||  |  ||      |         | |  ||   | | ||  |   |  |||     |  ||  | ||||| |  |||| ||| ||  | ||||| |||||||||||||| ||||||||||||||  | ||| |    |||||||| || ||  ||||| | |||||||
tatccagggattcgcacattgagttcttggatacaacgtttgaaattactccctgaattaaggcgcgtacttcttttgtttactattggtaatta-tgcagGTGTGCGAGAGGCTGGGGCCAAGTTTGTACGATTTTCTTCGAAAAAACAATTATCGACCGTTTTCTGCAGATCTTGTTCGAGATTTTGGCCGCCAACTCT

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|125321802|gb|EL335887.1|EL335887
EST:     TTGTGTACAAATTCGGAACTGGTTTGACTATCGTAACCATATCTGTATT                         GTATTTGAGAAG
genomic: TTGTGTACAAATTCGGAACTGGTTTGACTATCGTAACCATATCTGTATTgtaagtattt ... gttgctacagGTATTTGAGAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgggaaatagttggggttgaattttgtggatgaacttaaaatggttgctacagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT
                                  aacttaaaat  TA-rich tract