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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTTTGGTGAGGCGGAGAAATATGTCAAGGCAGTATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatcggatgtttgttacatttgatgtatgtttctctacag

Basic information

species Selaginella moellendorffii
transcript EFJ34631
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ34631 (Selaginella moellendorffii), 5'ss of exon 12
lower sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 18
TGGTTTGGTGAGGCGGAGAAATATGTCAAGGCAGTATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgta--tgcaatcggatgtttgttacatttgatgtatgtttctctacag----------------------------------------------------
||||||||||| |  |||||||||||||| ||||| ||| || |||||||||||||  | ||||| ||  | ||  ||||||||||   |  | |  |   ||||||    ||  | |   ||| |||                                                        
TGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAGgttgctttattatgtcatttgtttatcttcctttgaatttttcttttcctttattttaaatattttttttaaaactttttacccttcatatgagccattt
















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|169030971|gb|FE440332.1|FE440332
EST:     TATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169043401|gb|FE451338.1|FE451338
EST:     TATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169024270|gb|FE435222.1|FE435222
EST:     AGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: AGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169052463|gb|FE462271.1|FE462271
EST:     TATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169052464|gb|FE462272.1|FE462272
EST:     TATTTACTTTGGCCAGCANAATCTCACCAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169069504|gb|FE480575.1|FE480575
EST:     TATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTT-GGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169082585|gb|FE489069.1|FE489069
EST:     TATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169115759|gb|FE517345.1|FE517345
EST:     TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169107241|gb|FE504119.1|FE504119
EST:     TATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169070626|gb|FE480085.1|FE480085
EST:     TATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169082584|gb|FE489068.1|FE489068
EST:     TATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169081354|gb|FE489292.1|FE489292
EST:     CCAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: CCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169076790|gb|FE485833.1|FE485833
EST:     TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169063160|gb|FE471682.1|FE471682
EST:     GCGTGGTGTTCATTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: GCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169081355|gb|FE489293.1|FE489293
EST:     TATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169064336|gb|FE471899.1|FE471899
EST:     TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169092697|gb|FE494926.1|FE494926
EST:     CAAGCGTGGTGTTCGTTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: CAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169064335|gb|FE471898.1|FE471898
EST:     TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: TATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
EST: gi|169034852|gb|FE444041.1|FE444041
EST:     GCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAG                         GTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG
genomic: GCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATG

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), 35 (downstream exon)
Score: 10

TGGTTTGGTGAGGCGGAGAAATATGTCAAGGCAGTATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAGgtatgcaatc ... ttctctacagGTTGATAGCATGTTGGGTAGAAGAGGTAAAGACCACGAGCATTCAGCCATGCGGAAGCTGAAGAACGAATTCATGGCTAGCTGGGACGGATTAAGAACGC




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