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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTACTGGAACTCTTCGTGGGTTTGATCAGTTCATGAATCTTGTTGTGGATAACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTGgtaagtctctcgattctgtgtccctttgtcgttaatcttctgctgctcttgactgatgttttactttggttttgggagcag

Basic information

species Arabidopsis thaliana
transcript AT2G23930.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G23930.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G083642_T02 (Zea mays), 5'ss of exon 3
GGTTACTGGAACTCTTCGTGGGTTTGATCAGTTCATGAATCTTGTTGTGGATAACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTGgtaagtctctcgattctgtgtccctttgtcgttaatcttctgctgctcttgactgatgttttactttggttttgggagcag
 ||||  || || ||||||||||| || |||||||||||||| || ||||| |||||||| ||||| || || || |||||||| || || || |||||||||||| |     | |||      | | | | || |    |  |    |   ||||     |||| |  |  |  |     
TGTTATCGGCACACTTCGTGGGTTCGACCAGTTCATGAATCTGGTGGTGGACAACACTGTGGAGGTCAATGGAAATGACAAAACAGATATTGGAATGGTGgtaagttttcttctactgaaaggttat-ttggtacttgcttagtaacat--gctgacagcctactattatcctcag-----

upper sequence: AT2G23930.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA11G09150.1 (Glycine max), 5'ss of exon 3
GGTTACTGGAACTCTTCGTGGGTTTGATCAGTTCATGAATCTTGTTGTGGATAACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTGgtaagtctctcgattctgtgtccctttgtcgttaatcttctgctgc----------tcttgactgatg-ttttactttggttttgggagcag
| ||  ||| ||||| ||||| ||||| ||||| |||||| | ||||| || |||||||| || ||||| || || || ||||  ||||| ||||||||||| ||||      ||||   |  |||||| || ||  |   || |           | |  | ||||  ||||||  |  |  ||       
GATTGTTGGCACTCTCCGTGGCTTTGACCAGTTTATGAATTTAGTTGTTGACAACACTGTGGAAGTGAATGGCAATGAGAAAAATGACATAGGGATGGTGgtgagtcctc---ttctcattttctttgtggtcaaggtatagcagtgagcatggattttaaattgataattttacccttttactgcag----

upper sequence: AT2G23930.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G38130.1 (Glycine max), 5'ss of exon 3
GGTTACTGGAACTCTTCGTGGGTTTGATCAGTTCATGAATCTTGTTGTGGATAACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTGgtaagtctctcgattctg---tgtccctttgtcgttaatcttc----tgctgctcttgactgatgttttactttggttttgggagcag----------------------
||||  ||| ||||| ||||| ||||| ||||| |||||| | ||||| || |||||||| || ||||| || || || ||||  ||||| ||||||||||| ||||      || ||   ||||  ||     | | |  |     |  |||  || |  || |  | |   ||| ||||  |                          
GGTTGTTGGTACTCTCCGTGGCTTTGACCAGTTTATGAATTTAGTTGTTGACAACACTGTGGAAGTGAATGGCAATGAGAAAAATGACATAGGGATGGTGgtgagtcctattcttttgcattgtcttttaaatttaagttgttaagatattgcagttaataga-gcatgaacatggatttgaaattgataattttttcctcttattgcag

upper sequence: AT2G23930.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv08s0007g03130.t01 (Vitis vinifera), 5'ss of exon 3
GGTTACTGGAACTCTTCGTGGGTTTGATCAGTTCATGAATCTTGTTGTGGATAACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTGgtaagtc---tctcgattctgtgtccctttgtcgttaatcttctgctgctcttgactgatgttttactttggttttgggagcag-------------------------------
|||   ||||||||||||||||||||| ||||||||||| || || ||||| |||||||| || ||||| || || || ||||| || || || ||||||||| ||    | |  ||  ||| |   |||    ||||| || |  |   | |    ||| |  |||| |  ||     |||                                 
GGTGGTTGGAACTCTTCGTGGGTTTGACCAGTTCATGAACCTGGTGGTGGACAACACTGTGGAAGTGAATGGAAATGAGAAAACTGATATAGGCATGGTGgtaggttaatttttcatcttgttttatttttctcttaatattttatttaccatt-tggatatgatactgtaattagctcagccttttgcaattgatgtcacaattgtacctgcag

upper sequence: AT2G23930.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S475_6V6.1 (Physcomitrella patens), 5'ss of exon 3
GGTTACTGGAACTCTTCGTGGGTTTGATCAGTTCATGAATCTTGTTGTGGATAACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTGgtaagtctctcgattctgtgtccctt----tgtcgttaatc--ttctgctgctcttgactgatgttttacttt----ggttttgggagcag-------------------------------------------
 |||  ||||   || ||||| ||||| ||||||||||| |||||  ||||||||||||||||| | || |||   |||| || ||| || || |||||||| || | ||| |  |  |||  |||    |  | |  |||  || |   |||| ||  ||   |||  ||||      | ||  ||  |                                            
TGTTGTTGGAGTCCTGCGTGGATTTGACCAGTTCATGAACCTTGTACTGGATAACACTGTTGAGATCAATGGTGCTGACAGAAACGAGATTGGCATGGTGgtgaggc-ctctacccgttgtttcttgagttaacatatatcgattgtaacgctcctgtgtgcgttttccctttttcaaatcttttgaagatacatattgggacatctaatgagcaaatcgggtgttgtgtgcag

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|164152715|gb|ES056777.1|ES056777
EST:     GTAACGACAAAACCGACATCGGGATGGTG                         GTGATTAGAGGAAACAGCATTGTCACTGTTGAAGCTCTCGAACCAG
genomic: GTAACGACAAAACCGACATCGGGATGGTGgtaagtctct ... ttgggagcagGTGATTAGAGGAAACAGCATTGTCACTGTTGAAGCTCTTGAACCAG
EST: gi|164150748|gb|ES132647.1|ES132647
EST:     ATAACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTG                         GTGATTAGAGGAAACAGCATTGTCACTGTTGAAGCTCTTGAACCAG
genomic: ATAACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTGgtaagtctct ... ttgggagcagGTGATTAGAGGAAACAGCATTGTCACTGTTGAAGCTCTTGAACCAG
EST: gi|164139665|gb|ES091626.1|ES091626
EST:     GAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTG                         GTGATTAGAGGAAACAGACATTGTCACTGTTGAAGCTC
genomic: GAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTGgtaagtctct ... ttgggagcagGTGATTAGAGGAAACAG-CATTGTCACTGTTGAAGCTC
EST: gi|47830339|gb|CK120023.1|CK120023
EST:     ATAACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTG                         GTGATTAGAGGAAACAGCATTGTCACTGTTGAAGCTCTTGAACCAGTGGGC
genomic: ATAACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTGgtaagtctct ... ttgggagcagGTGATTAGAGGAAACAGCATTGTCACTGTTGAAGCTCTTGAACCAGTGGGC
EST: gi|164087913|gb|ES001564.1|ES001564
EST:     AACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTG                         GTGATTAGAGGAAACAGCATTGTCACTGTTGAAGCTCTTGAACCA-TGGGC
genomic: AACACTGTTGAGGTGAACGGTAACGACAAAACCGACATCGGGATGGTGgtaagtctct ... ttgggagcagGTGATTAGAGGAAACAGCATTGTCACTGTTGAAGCTCTTGAACCAGTGGGC