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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaaggagcttaatagatatccggttaacgattttctgttttcttttgcatag

Basic information

species Selaginella moellendorffii
transcript EFJ11911
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ11911 (Selaginella moellendorffii), 5'ss of exon 11
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 5'ss of exon 12
ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgt----accgcaaaggagcttaatagatatccggttaa--cgattttctgttttcttttgcatag------------------
|| |||||||| ||||||||| | ||||| ||||||||||| ||||||||    |    |    |  || ||  ||| ||  |  |  | || | | | | |  ||  | ||                   
ATATATCCACCCATCAACGTGCTTCCATCCCTTTCTCGTTTAATGAAGgttagaattcaactccattttgattaatacccattgcattctatctccagatcttattaacgtattgtttctcattctgttag
















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|169108145|gb|FE512518.1|FE512518
EST:     TTGCCATCGCTTTCTCGTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: TTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
EST: gi|169093628|gb|FE492360.1|FE492360
EST:     ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
EST: gi|169057425|gb|FE465729.1|FE465729
EST:     ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
EST: gi|169049332|gb|FE458243.1|FE458243
EST:     ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
EST: gi|169031673|gb|FE437474.1|FE437474
EST:     ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
EST: gi|169035380|gb|FE444318.1|FE444318
EST:     ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
EST: gi|169092668|gb|FE496262.1|FE496262
EST:     ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
EST: gi|169104893|gb|FE509037.1|FE509037
EST:     GTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: GTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
EST: gi|169088664|gb|FE491524.1|FE491524
EST:     ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
EST: gi|169114882|gb|FE515831.1|FE515831
EST:     ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
EST: gi|169028054|gb|FE435932.1|FE435932
EST:     ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
EST: gi|169059084|gb|FE468229.1|FE468229
EST:     ATCTATCCCCCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG                         AGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC
genomic: ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAAC

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: 34 (upstream exon), 35 (downstream exon)
Score: 87

ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAGgtaccgcaaa ... ttttgcatagAGTGCTATTGGAGAAGGTATGACCCGAAAGGATCACTCCGACGTTTCGAACCAG




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