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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTTGACACATTCAACACAGCGGTTGTGTCACCAATCTACTATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaagttcactcgatgttttcctttatcacaagctgctattcctattccag

Basic information

species Selaginella moellendorffii
transcript EFJ22449
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ22449 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: AT2G21120.1 (Arabidopsis thaliana), 5'ss of exon 7
GCTCTTGACACATTCAACACAGCGGTTGTGTCACCAATCTACTATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaa-gttcactcgatgttttcctttatc-acaagctgctattcctattccag------------------------------
||| | |||||||||||| ||||  |||| || ||| | ||||||||||||||||| ||  |||| ||||||||||| |  || |||||||||||  |       |    | ||||  ||| ||  ||||     || |   |  | |                               
GCTTTGGACACATTCAACGCAGCCATTGTTTCTCCAGTATACTATGTAATGTTCACAACCCTCACAATTGTTGCTAGTGCAATAATGTTCAAGgtaggttcaactagaaaacgtttagcttgatttacaaaagattagtaaaaagcaaacactgtaacattgaaactcggttttcacag

upper sequence: EFJ22449 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: AT4G38730.1 (Arabidopsis thaliana), 5'ss of exon 7
GCTCTTGACACATTCAACACAGCGGTTGTGTCACCAATCTACTATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaagttcactcgatgttttcctttatcacaagctgc-tattcctattccag--------------------------
|| || |||||||||||| ||||  |||| || |||||||| ||||| |||||||| ||  |||| ||||| ||||| |  || |||||||||||    || |  |   |    ||      | |  | |  | | || | |                                
GCGCTGGACACATTCAACGCAGCAATTGTTTCTCCAATCTATTATGTGATGTTCACAACACTCACAATTGTCGCTAGTGCAATCATGTTCAAGgtagagagatttcaacaaacattaaagagtaatgatcctcgtgtttcaagattgtcaaatgaatcacctttttcttaacag
















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|169099938|gb|FE503426.1|FE503426
EST:     ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAG                         GACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
genomic: ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaagtt ... cctattccagGACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
EST: gi|169026886|gb|FE434237.1|FE434237
EST:     ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAG                         GACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
genomic: ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaagtt ... cctattccagGACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
EST: gi|169082616|gb|FE489087.1|FE489087
EST:     ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAG                         GACTGGGATACACAGAGCCCTC
genomic: ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaagtt ... cctattccagGACTGGGATACACAGAGCCCTC
EST: gi|169100905|gb|FE502235.1|FE502235
EST:     ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAG                         GACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
genomic: ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaagtt ... cctattccagGACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
EST: gi|169082615|gb|FE489086.1|FE489086
EST:     ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAG                         GACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
genomic: ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaagtt ... cctattccagGACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
EST: gi|169098839|gb|FE502236.1|FE502236
EST:     ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAG                         GACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
genomic: ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaagtt ... cctattccagGACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
EST: gi|169095049|gb|FE498023.1|FE498023
EST:     ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAG                         GACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
genomic: ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaagtt ... cctattccagGACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
EST: gi|169043582|gb|FE450804.1|FE450804
EST:     ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAG                         GACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC
genomic: ATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaagtt ... cctattccagGACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 33 (upstream exon), 25 (downstream exon)
Score: 3

GCTCTTGACACATTCAACACAGCGGTTGTGTCACCAATCTACTATGTAATGTTCACGACGTTCACGATTGTTGCTAGCGTGATTATGTTCAAGgtgagaagtt ... cctattccagGACTGGGATACACAGAGCCCTCGAAATATTGTCTCCGAGATTTCTGGTTTCATCACCATACTGTCAGGCACCTATTTGCTGCACGTAACGAAAGACTATG




<











<


<