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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTGTGGACTGGGCGAAATCCCAAGGTGTGGAGCAATTCTTGTTCATCAGTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacctccactttctctcttttttttctcgcttctcagctcaagcgaattgctgcaaacag

Basic information

species Selaginella moellendorffii
transcript EFJ07654
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ07654 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: AT3G63140.1 (Arabidopsis thaliana), 5'ss of exon 3
TGTTGTGGACTGGGCGAAATCCCAAGGTGTGGAGCAATTCTTGTTCATCAGTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacctccactttctctcttttttttctcgcttctcagctcaagcgaattgctgcaa----acag
 || ||||| ||||| |||  |   || ||  |||||||||||||||| |||||||| || ||||||||  | |  ||  | ||||| ||||| |||||||||   ||     | |     ||| |   ||||| || || |  ||   |    | || |||     |||
AGTGGTGGATTGGGCTAAAAGCTCCGGCGTCAAGCAATTCTTGTTCATAAGTAGCGCCGGGATCTACAAGTCCACCGAACAACCTCCTCACGTTGAAGGGgtata-aattcttaatactgatctctaaattctcactacttatgtct--ccttcttctccaatgttgcag
















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|169039187|gb|FE448823.1|FE448823
EST:     ACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: ACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169028845|gb|FE438570.1|FE438570
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169095695|gb|FE497021.1|FE497021
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169069904|gb|FE477556.1|FE477556
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169034179|gb|FE444291.1|FE444291
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169109762|gb|FE511833.1|FE511833
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169064480|gb|FE472563.1|FE472563
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169082567|gb|FE489064.1|FE489064
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169103551|gb|FE507398.1|FE507398
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169049506|gb|FE457702.1|FE457702
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169020221|gb|FE428257.1|FE428257
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169053974|gb|FE461273.1|FE461273
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169049507|gb|FE457703.1|FE457703
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169069903|gb|FE477555.1|FE477555
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169039099|gb|FE448280.1|FE448280
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
EST: gi|169064479|gb|FE472562.1|FE472562
EST:     GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGG                         GATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA
genomic: GTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCA

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), 28 (downstream exon)
Score: 39

TGTTGTGGACTGGGCGAAATCCCAAGGTGTGGAGCAATTCTTGTTCATCAGTAGCGCAGGAATCTACAAAACTAGTGACGAGCCTCCGCACGTCGAAGGGgtaagcaacc ... ctgcaaacagGATCCTGTGAAAGTGGACGCAGGCCACGTCGGTGTGGAGGACTACATTTCAAAGTCGGCTTTCAAGTTTTGGTCCTCGTTTAGACCACAGTACATGACTG




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