Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgaccttgttcttgtgcctttaccttacttttcattgtagtttttagatgtttcaatacttatacttttcccttacagTGAATACCAAAGTAGATATGCGCTTCAATGTTAAGAACGCGTATTGGCTGAGTGACAGGATCAGAGAGAAAATCTTACTGACG

Basic information

species Arabidopsis thaliana
transcript AT1G62850.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G62850.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA17G14410.1 (Glycine max), 3'ss of exon 2
gtgtgaccttgttcttgtgcc--tttaccttacttttcattgtagtttttagatgtttcaatacttatacttttcccttacagTGAATACCAAAGTAGATATGCGCTTCAATGTTAAGAACGCGTATTGGCTGAGTGACAGGATCAGAGAGAAAATCTTACTGACG
||  |  | |  | ||||  |  || || |||        ||  |    |   |  |||  |   | |    |      |||||||| ||||| || || ||||||||||||||||| || || |||||| ||||||||||||||||||| || || || |  |||
gttcgttcattgttttgtttcatttcactttatgccattctgaggaggctcattagttctgtttgtttgtgctgattggacagTGAACACCAAGGTGGACATGCGCTTCAATGTTAAAAATGCATATTGGTTGAGTGACAGGATCAGAGACAAGATTTTGCAAACG

upper sequence: AT1G62850.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv02s0241g00090.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------gtgtgaccttg-ttcttgtgcctttaccttacttttc--attgtagtttttagatgtttcaata---cttatacttttccct---tacagTGAATACCAAAGTAGATATGCGCTTCAATGTTAAGAACGCGTATTGGCTGAGTGACAGGATCAGAGAGAAAATCTTACTGACG
                                   | |||  |   |||||    |  |   ||  ||||   ||   | | ||   |  | | | |    |||||     |  ||   ||||||||| || || || || ||||||||||||||||| || || |||||||| || |||||| |||| ||||  ||  | |  | |
gtctgttctttgtcgttttatatactaaatctttatttgatttcccttcttacttccctgttttttttttttgatcagactcttcttacttcttattgaggcttatttccattactggttacagTGAACACAAAGGTGGACATGCGCTTCAATGTTAAAAATGCTTATTGGCTAAGCGACAGGGTCAGGGAGAGGATTATGCAAATG
















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|86074747|gb|DR370504.1|DR370504
EST:     ACTTAACTTTGCTAGAAGTGGTGGTCCTGGAGGCCAGAATGTGAACAAAT                         TGAATACCAAAGTAGATATGCGCTTCAATGTTAAGAACGCGTATTGGCTGA
genomic: ACTTAACTTTGCTAGAAGTGGTGGTCCTGGAGGCCAGAATGTGAACAAATgtgtgacctt ... tcccttacagTGAATACCAAAGTAGATATGCGCTTCAATGTTAAGAACGCGTATTGGCTGA
EST: gi|125303429|gb|EL317514.1|EL317514
EST:     ACTTAACTTTGCTAGAAGTGGTGGTCCTGGAGGCCAGAATGTGAACAAAT                         TGAATACCAAAGTAGATATGCGCTTCAATGTTAAGAACGCGTATTGG
genomic: ACTTAACTTTGCTAGAAGTGGTGGTCCTGGAGGCCAGAATGTGAACAAATgtgtgacctt ... tcccttacagTGAATACCAAAGTAGATATGCGCTTCAATGTTAAGAACGCGTATTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttacttttcattgtagtttttagatgtttcaatacttatacttttcccttacagTGAATACCAAAGTAGATATGCGCTTCAATGTTAAGAACGCGTATTGGCTGAGTGACAGGATCAGAGAGAAAATCTTACTGACG
 accttac  putative branch site (score: 3)
                                   cttatacttttccctt  putative PPT
                               aatacttatactttt  TA-rich tract