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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGGACTTATTGGCGCCGGAACAAACAATGCGCGTATTGCGGGAATGCTTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttgatctctcttgtttttcttttttttcttcgttttcatcttagttttgtcaatctctgtcacag

Basic information

species Selaginella moellendorffii
transcript EFJ26022
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ26022 (Selaginella moellendorffii), 5'ss of exon 20
lower sequence: GLYMA06G44340.1 (Glycine max), 5'ss of exon 21
TCTTGGACTTATTGGCGCCGGAACAAACAATGCGCGTATTGCGGGAATGCTTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagttt-----gatctctcttgtttttctttt--ttttcttcgttttcat-----cttagttttgtcaatctctgtcacag
  | || || || || || ||||| |||||||| || ||||| || |||||||| |   | || || ||||||||||||||| |||||||||| ||||||||||| ||      | || || |  || | || |  ||| |   ||||| ||     |  | |||  |  | ||     | ||
CTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAGGATACCAGCCTTCTATTCTGCgtaagctttctctaagctttcctccttattttctaatttccactgtttttatggtcaccaattttcttttaccttatctatag

upper sequence: EFJ26022 (Selaginella moellendorffii), 5'ss of exon 20
lower sequence: GLYMA12G13410.1 (Glycine max), 5'ss of exon 21
TCTTGGACTTATTGGCGCCGGAACAAACAATGCGCGTATTGCGGGAATGCTTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttgatctctcttgtttttcttttt-tttcttcgttttcatcttagttttg-----tcaatctctgtcacag---------
  | || || || || || ||||| |||||||| || ||||| || |||||||| |   | || || ||||||||||||||| |||||||||| ||||| ||||| ||  |||    | |  | ||  || |||  |  ||| ||   |  || ||      || | ||| | ||           
CTTGGGTCTGATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCTAGTTATTACTACAAGGATACCAGCCTTCTATTCTGTgtaagctttctctaagctctcctcctccttattttctaatttccactgtttttatggtcacccattttcttttaccttatctatag

upper sequence: EFJ26022 (Selaginella moellendorffii), 5'ss of exon 20
lower sequence: AT4G28470.1 (Arabidopsis thaliana), 5'ss of exon 19
TCTTGGACTTATTGGCGCCGGAACAAACAATGCGCGTATTGCGGGAATGCTTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaa-gttt---gatctctctt--gtttttctt------------ttttttcttcgttttcatcttagttttgtcaatctctgtcacag-----
 |||||| | || ||||| ||||| ||||||||  | || || || |||||| |||   | ||||||||||| ||||||||| |||||||||| ||||| |||| ||||   ||| ||| ||    ||||| |             ||| |  |  |  |   |||  | |  |     |  ||||||      
CCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCAGCCTTCTTTTCTGTgtaacgttttatgatttctttttaagttttcatggaataaacacggtttctacttatgataggcttgttctcattgtcttaagtcacaatgcag

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|169064751|gb|FE476097.1|FE476097
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169025374|gb|FE435988.1|FE435988
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169088930|gb|FE494442.1|FE494442
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169088931|gb|FE494443.1|FE494443
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169019957|gb|FE431022.1|FE431022
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169080935|gb|FE486104.1|FE486104
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169030421|gb|FE438677.1|FE438677
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169116305|gb|FE517252.1|FE517252
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169066440|gb|FE474663.1|FE474663
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169028508|gb|FE439923.1|FE439923
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169097980|gb|FE498777.1|FE498777
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169064752|gb|FE476098.1|FE476098
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169059060|gb|FE468205.1|FE468205
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169116306|gb|FE517253.1|FE517253
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169097109|gb|FE498955.1|FE498955
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169064768|gb|FE473735.1|FE473735
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
EST: gi|169025373|gb|FE435987.1|FE435987
EST:     TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGC                         GTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA
genomic: TTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTA

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: 23

TCTTGGACTTATTGGCGCCGGAACAAACAATGCGCGTATTGCGGGAATGCTTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaagtttga ... tctgtcacagGTTCGGATCGCCCAGGGACTTGTACACATGGGAAAGGGACTAATCACTTTAAATCCTTACCATTCTGATCGTTTCTTGCTCTCGAC




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