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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACAGTGGATCGGAGAAGACTAACAACACCATTGTTCAGATCAATAGGTTCTTCAAAGACGGGATCGGTCTTGGCGGTATATTCCACAGCGCTATTCAGgtactactcttcgtctatattctatgaatctacatttatgtacaattatcgatgatgtctaagcttggttttggtctactttatgtagatttggtttttg...

Basic information

species Arabidopsis thaliana
transcript AT4G25680.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G25680.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os10g38970.1 (Oryza sativa), 5'ss of exon 1
GAACAGTGGATCGGAGAAGACTAACAACACCATTGTTCAGATCAATAGGTTCTTCAAAGACGGGATCGGTCTTGGCGGTATATTCCACAGCGCTATTCAGgtactactcttcgtctatattctatgaatctacatttatgtacaattatcgatgatgtctaagcttggttttggt--ctactttatgtagatttggtttttg----------------------------------------------
|||||| |  ||||||||||| |||||||||||  | ||||||||  |  ||||||| ||| ||||||| || ||||| || |||||||||||  | ||||| |  |||  || |    | | |     |  |   |  |        | | |  ||  |   ||| |  ||  |  || ||  |  |     || |||| |                                              
GAACAGCGACTCGGAGAAGACGAACAACACCATCCTCCAGATCAACCGCATCTTCAAGGACCGGATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgttcgcctccgcg-cggcctcccagatcccccctagtgaggggcgcatttgcttttgcttcgccttcgccttccttcctcctccagatctcgctgattttggttggttctctctcgcccttttttgttcggatcccggaggtgcgcag

upper sequence: AT4G25680.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA16G29860.2 (Glycine max), 5'ss of exon 1
GAACAGTGGATCGGAGAAGACTAACAACACCATTGTTCAGATCAATAGGTTCTTCAAAGACGGGATCGGTCTTGGCGGTATATTCCACAGCGCTATTCAGgtactactcttcgtctatattctatgaatctacatttatgtacaattatcgatgatgtctaagcttggttttggtctactttatgtagatttggtttttg---
||| |||||||| ||||| || ||||||||||||||||||||||| | | ||||||| || ||||| |||||||| || || |||||||||||  | |||||  |  || ||   || |   |   |    | ||  ||||    |  | | || ||| | ||  | |    ||| || |  || | | |||  ||  ||   
GAATAGTGGATCCGAGAAAACCAACAACACCATTGTTCAGATCAACAAGATCTTCAAGGATGGGATTGGTCTTGGTGGCATTTTCCACAGCGCCGTGCAGgtcttgttcctctcttaaaactttgtag---aaatcaatgtttcttgtttgttgttgtttgaggattgacacggtttattggatctggtttttcttcctgttt

upper sequence: AT4G25680.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA09G24630.1 (Glycine max), 5'ss of exon 1
GAACAGTGGATCGGAGAAGACTAACAACACCATTGTTCAGATCAATAGGTTCTTCAAAGACGGGATCGGTCTTGGCGGTATATTCCACAGCGCTATTCAGgtactactcttcgtctatattctatgaatctacatttatgtacaattatcgatgatgtctaagcttggttttggtctactttatgtagatttggtttt-tg
||| |||||||| ||||| || |||| |||||||||||||||||| | | ||||||| || ||||| |||||||| || || |||||||||||| | |||||  |  || || |||| |||   |  |  |  || | | |    || |  | |||    |   ||  ||  | |||  ||| | | | | | ||||| ||
GAATAGTGGATCCGAGAAAACCAACAGCACCATTGTTCAGATCAACAAGATCTTCAAGGATGGGATTGGTCTTGGTGGCATCTTCCACAGCGCTGTGCAGgttttgttcctcctctaaatttcgtagaaatcaatgtttctgtttttttttaggattcacactgtttattg-gatctggtttttcttgttcttgttttgtg

upper sequence: AT4G25680.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv16s0050g01050.t01 (Vitis vinifera), 5'ss of exon 1
GAACAGTGGATCGGAGAAGACTAACAACACCATTGTTCAGATCAATAGGTTCTTCAAAGACGGGATCGGTCTTGGCGGTATATTCCACAGCGCTATTCAGgtactactcttcgtctatattc-tatgaatctacatttatgtacaattatcgatgatgtctaagcttggttttggtctactttatgtagatttggtttttg
 || ||||| || |||||||| ||||||||||||||||||||||| | | ||||||| ||||| || || || || || || |||||||||||| | |||||  | ||||   | || || | | ||  | ||  | ||||     || || ||  | |  ||   |     |  |    ||||| |  ||||  ||||||
TAATAGTGGCTCAGAGAAGACGAACAACACCATTGTTCAGATCAACAAGATCTTCAAGGACGGTATTGGCCTCGGTGGCATTTTCCACAGCGCTGTGCAGgtctttctctctttataaatccgtctgtttttatctatatgcgtggttgtcaattgttttgaattgttagggtttttatttttattttcatttt-tttttg

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|19874751|gb|AU235582.1|AU235582
EST:     TCTTCAAAGACGGGATCGGTCTTGGCGGTATATTCCACAGCGCTATTCAG                         GTATATGGAAACGATGAATGGTCTTACGGGTATTGTGAACTAGGAACTGGT
genomic: TCTTCAAAGACGGGATCGGTCTTGGCGGTATATTCCACAGCGCTATTCAGgtactactct ... ctttgtgcagGTATATGGAAACGATGAATGGTCTTACGGGTATTGTGAACTAGGAACTGGT