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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTATCGCTGGAGTGGCCGATGATCAAGGATATGGATGGGCGATTGCCAAAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCGgtaattcatgacttcgtgtttcttgtttagctctctttcaactgttgggtgctaacttttctattcttttag

Basic information

species Selaginella moellendorffii
transcript EFJ10940
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ10940 (Selaginella moellendorffii), 5'ss of exon 2
lower sequence: GLYMA11G10770.1 (Glycine max), 5'ss of exon 3
ATTTATCGCTGGAGTGGCCGATGATCAAGGATATGGATGGGCGATTGCCAAAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCGgtaattcatgacttcgtgtttcttgtttagctctctttcaactgttgggtgctaacttttcta--ttcttttag---------------------------------------------------------------------------------------------
 ||||| ||||| || || |||||  | |||||||||||||| ||||| ||| | |||||| | ||||| |||||||||||  | || || ||||| || |||| | ||   ||  | ||   |    |          | | ||||      || ||  | |  |||| |  |                                                                                             
TTTTATTGCTGGTGTTGCTGATGACAATGGATATGGATGGGCAATTGCAAAATCTCTTGCTGCAGCCGGAGCTGAAATTCTTGTTGGCACATGGGTACCTgtaagttatttgtttattttggataaaaaatgggtacctatcagttgatatacaaattcacgaggttctgtctgctgacttttggaacaacacctcccccctccagtgcatatgttttccagtccttttacggtgatacatttactaactgtgaactatttctatag
















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|169024461|gb|FE434386.1|FE434386
EST:     AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCGTGGGAACCTGGGTTCCG                         GCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG
genomic: AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCGgtaattcatg ... attcttttagGCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG
EST: gi|169113336|gb|FE515287.1|FE515287
EST:     AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCG                         GCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG
genomic: AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCGgtaattcatg ... attcttttagGCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG
EST: gi|169041055|gb|FE450355.1|FE450355
EST:     AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCGTGGGAACCTGGGTTCCG                         GCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG
genomic: AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCGgtaattcatg ... attcttttagGCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG
EST: gi|169083533|gb|FE495877.1|FE495877
EST:     AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCG                         GCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG
genomic: AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCGgtaattcatg ... attcttttagGCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG
EST: gi|169039555|gb|FE449945.1|FE449945
EST:     AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCG                         GCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG
genomic: AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCGgtaattcatg ... attcttttagGCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG
EST: gi|169106434|gb|FE507446.1|FE507446
EST:     AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCG                         GCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG
genomic: AAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCGgtaattcatg ... attcttttagGCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCG

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: 35 (upstream exon), 35 (downstream exon)
Score: 35

ATTTATCGCTGGAGTGGCCGATGATCAAGGATATGGATGGGCGATTGCCAAAACGCTTGCTTCTGCCGGGGCTGAAATTCTCTTGGGAACCTGGGTTCCGgtaattcatg ... attcttttagGCTCTCAATATCTTTGAAACCAGCTTGAGGAGAGGAAAATTCGATGAGTCGAGACA




<











<


<