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

gtaagtcttctactgtcaagtagtttcaagcacttaagtcttttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCTCACAACAAGTTCACGGAAGTATGGCACGTTGCAAGCGAGCAATTCAACC

Basic information

species Selaginella moellendorffii
transcript EFJ04362
intron # 11
splice site 3'
intron type U2

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|169115347|gb|FE517037.1|FE517037
EST:     CGTTTGGCTCTAAGTTTCGAAAGACCGTATTCAAAAACTTCGCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTACTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT
EST: gi|169060229|gb|FE467591.1|FE467591
EST:     CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACTTCTCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTGCTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT
EST: gi|169077744|gb|FE485422.1|FE485422
EST:     CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACTTCTCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTGCTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT
EST: gi|169060230|gb|FE467592.1|FE467592
EST:     CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACTTCTCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTGCTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT
EST: gi|169044638|gb|FE452432.1|FE452432
EST:     CGTTTGGCTCTAAGTTTCGAAAGACCGTATTCAAAAACTTCGCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTACTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT
EST: gi|169023904|gb|FE436429.1|FE436429
EST:     CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACTTCTCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTGCTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT
EST: gi|169034104|gb|FE444255.1|FE444255
EST:     CGTTTGGCTCTAAGTTTCGAAAGACCGTATTCAAAAACTTCGCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTACTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT
EST: gi|169028546|gb|FE437257.1|FE437257
EST:     CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACTTCTCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTGCTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT
EST: gi|169099024|gb|FE501758.1|FE501758
EST:     CGTTTGGCTCTAAGTTTCGAAAGACCGTATTCAAAAACTTCGCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTACTTCTTCCC
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCC-
EST: gi|169022071|gb|FE430952.1|FE430952
EST:     CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACTTCTCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTGCTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT
EST: gi|169069994|gb|FE476463.1|FE476463
EST:     CGTTTGGCTCTAAGTTTCGAAAGACCGTATTCAAAAACTTCGCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTACTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT
EST: gi|169093587|gb|FE492345.1|FE492345
EST:     CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACTTCTCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTGCTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT
EST: gi|169072876|gb|FE482322.1|FE482322
EST:     CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACTTCTCTTTGATG                         GTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTATTGCTTCTTCCT
genomic: CGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCT

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: 19 (upstream exon), 22 (downstream exon)
Score: 4

GTTGTTCTTCACAATGTATTTCCAGTTCATCACGTCCGCATTCGTGTTCTCGTTTGGCTCCAAGTTTCGAAAGACCGTATTCAAAAACCTCTCTTTGATGgtaagtcttc ... ttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCTCACAACAAGTTCACGGAAGTATGGCACGTTGCAAGCGAGCAATTCAACC




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagtcttctactgtcaagtagtttcaagcacttaagtcttttccacgcagGTTTCGTACTGGTCATTGATCGCTGTGTGCTCTTGTCTACTGCTTCTTCCTCACAACAAGTTCACGGAAGTATGGCACGTTGCAAGCGAGCAATTCAACC
                                           tcttttccac  CT-rich tract