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'   
11  
 5'  3'   
12  
 5'  3'   
13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag

Basic information

species Arabidopsis thaliana
transcript AT3G08930.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttg---atgaaattttagtat---ctctat---gttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag
|||||||| || ||||| || | || |||| ||||| | ||||| ||| | |||||||||||||| ||||| | ||| || |||||||||||||||| |||| | || | || | | | |||||| ||| | | | ||| | ||||| || | || | | | || || |||
CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagtatacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgttgattggatccgtgtgttgttgcttcctgcag

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM5G871262_T02 (Zea mays), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag
|||||| | || ||||| | |||| ||||| ||||| | ||||| ||| | |||||||||||||||||||| | ||| || |||||||||||||||| | || | || || ||| || | || | || ||||||| |||| | || || |
CCATGAGGACGCTCTGGCTCGTCGTTTACATCGTTGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCAATGTTCTACTACGAGGGCGACCAGGACAAgta---acctcacccccctcgctgtttccctaccttctcttcttccatccgtccg----ctgatga---tttggacccgccttccctgcag-----------

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA03G07890.1 (Glycine max), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag---------------------------------------------
|||||||||| || ||||| || ||||| ||| | ||||| | ||||| ||||| |||||||||||||| ||||| | ||| ||||||||||||||||||| || | ||||| | | | | | ||||||||| | | || ||||||| |||| | | | | | | | | || |
CCATGAAGGACCTCTGGCTCGCAATTTACATCCTCGACGCCGTCCTCGTCTTCTTCGTCATCCCCTTCGCCATGTTCTACTACGAAGGCGACCAGGACAAgtaagtgtatgtggtgctttttaatttttaaaaaatttaagttttgtgattattagatactga----aattgatactttgtgctaatagcatggtaacaaaaaaaatactgaaattgaaaatgtgttgtgattttgggaatgtgcag

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttg-atgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgaca-atttgtgggctttttttctttcgttttttcacag
|||||||||| || ||||| || | || ||| | ||||| | ||||| ||||| |||||||||||||| ||||| ||||| || |||||||||||||||| || | || | | ||| || | || || || | ||| | | |||| | |||||| || | | |
CCATGAAGGACCTCTGGCTCGCAGTCTACATCCTCGACGCCGTCCTCGTCTTCTTCGTCATCCCCTTCGCCATGTTCTTCTACGAGGGCGACCAGGACAAgtacgaggtttttgttattgtttgaaatttgaatcttc---gtcaagtgtttcgtgggtttgaatgaaatgtttgtgactttgtgtgcag--------------

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttg-tgggctttttttctttcgttttttcacag
|||||||||| || ||||| || ||||| ||| | ||||| | ||||| ||||| || |||||||| || ||||| | ||| ||||||||||||||||||| || | || | | | || | ||||| | |||| ||| | ||| | | | || | || || | || | |
CCATGAAGGACCTCTGGCTCGCAATTTACATCCTCGACGCCGTCCTCGTCTTCTTCGTTATCCCCTTTGCCATGTTCTACTACGAAGGCGACCAGGACAAgtaagt-gtatgtcgtggtgcttttaatttgatgtttttttttttttgtt--tttaatttttgtaatcatatactgaaattgaacgaaccagacgttggtccg

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag
|||||||||| || ||||| || | || ||| | |||||| | ||||| || || || ||||||||||| ||||| ||||| || |||||||||||||||| || || || |||| | | | |||| | || | || || |||| | |||| ||| | || ||| | | |||
CCATGAAGGACCTCTGGCTCGCCGTCTACATCCTCGACGCTGTCCTCGTCTTTTTCGTTATCCCCTTCGCCATGTTCTTCTACGAGGGCGACCAGGACAAgtacg-agttt-------tttttcttttctttcgttggttgcttcaaaatatcaccatttgaatgaaatgttgtattggtttgtggctttgttgtgt-gcag

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag---
| |||| |||||| ||||| || ||||| || || || ||| | ||||| |||||||| || |||||||| ||||| | ||| ||||||||||||||||||| ||| || | || || || || || | || | || | | | | ||| || | || || | | | |
CGATGAGGGATCTGTGGCTCGCCATTTACATTGTTGATGCTGTACTCGTATTCTTTGTTATTCCCTTCGCCATGTTCTACTACGAAGGCGACCAGGACAAgtcggtacttta--gggtttctattaatat--tgctgagatttcgtatttctccttttgttagagttgattggttg-ctgcgagactgaaggaaaataaaataaa

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|164147971|gb|ES120429.1|ES120429
EST:     TTCTTTGTTATCCCCTTCGCAATG-TTTTCTATGAAGGCGACCAGGACAA                         GACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGT
genomic: TTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagct ... tttttcacagGACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGT
EST: gi|116451406|gb|EG493998.1|EG493998
EST:     TTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAA                         GACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGTAGTTACCACGGC
genomic: TTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagct ... tttttcacagGACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGTAGTTACCACGGC
EST: gi|164098201|gb|ES185617.1|ES185617
EST:     TTCTTTGTTATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAA                         GACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGT
genomic: TTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagct ... tttttcacagGACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGT