Sequence
atgc intronic sequence ATGC exonic sequencegtaagcctcgagagctgctcgtgattacgtactgtttctttttttcgttacagATATACCATGGTTTTAGTGGAGAATGTTGACGGAGGCGACGATCTCGATCTGATAGTTACAACCATGAATGGAAACGTCTACTGTTTCCAAACCCCAGTG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ23254 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ23254 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
--------------------gtaagcctcgagagctgctcgtgattacgtactgtttctttttttcgttacagATATACCATGGTTTTAGTGGAGAATGTTGACGGAGGCGACGATCTCGATCTGATAGTTACAACCATGAATGGAAACGTCTACTGTTTCCAAACCCCAGTG
| || | | || || | | ||| |||||||||| | |||||| || | || ||||||||||| || || ||||||||||| || || |||| |||||||||||||||| || ||| ||| ||
gtaagtcacttttgcttcctctcggcacgtaatatctttagtattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT
upper sequence: EFJ23254 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
----gtaagcctcgagagctgctcgtgatta--cgtactgtttctttttt---------------------------tcgttacagATATACCATGGTTTTAGTGGAGAATGTTGACGGAGGCGACGATCTCGATCTGATAGTTACAACCATGAATGGAAACGTCTACTGTTTCCAAACCCCAGTG
|| | |||| | || || || ||| |||||||| ||||| | ||||||||||| |||||| | | ||| |||||||| || || || ||||| ||||| || ||||||||||||||||| || || | || || ||| || |
gtaagttatcctccactactattcatgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgcctttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCTMapped 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|169073138|gb|FE484191.1|FE484191EST: ATCGATGGGAAAACTGGCTGTGCCGACGCAACAGATATTGGAGAAACATC ATATACCATGGTTTTAGCGGAGAATGTTGACGGAGGCGACGATCTCGATCT
genomic: ATCGATGGGAAAACTGGCTGTGCCGACGCAACAGATATTGGAGAAACATCgtaagcctcg ... ttcgttacagATATACCATGGTTTTAGTGGAGAATGTTGACGGAGGCGACGATCTCGATCT
EST:
gi|169038587|gb|FE447419.1|FE447419EST: ATCGATGGGAAAACTGGCTGTGCCGACGCAACAGATATTGGAGAAACATC ATATACCATGGTTTTAGCGGAGAATGTTGACGGAGGCGACGATCTCGATCT
genomic: ATCGATGGGAAAACTGGCTGTGCCGACGCAACAGATATTGGAGAAACATCgtaagcctcg ... ttcgttacagATATACCATGGTTTTAGTGGAGAATGTTGACGGAGGCGACGATCTCGATCT
EST:
gi|169035137|gb|FE445947.1|FE445947EST: ATCGATGGGAAAACTGGCTGTGCCGACGCAACAGATATTGGAGAAACATC ATATACCATGGTTTTAGTGGAGAATGTTGACGGAGGCGACGATCTCGATCT
genomic: ATCGATGGGAAAACTGGCTGTGCCGACGCAACAGATATTGGAGAAACATCgtaagcctcg ... ttcgttacagATATACCATGGTTTTAGTGGAGAATGTTGACGGAGGCGACGATCTCGATCT
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),
25 (downstream exon)
Score:
7AAGCCGACGTGGTCTTGGTTGCAACTTCGTTCGATGGCTACCTGTACATTATCGATGGGAAAACTGGCTGTGCCGACGCAACAGATATTGGAGAAACATCgtaagcctcg ... ttcgttacagATATACCATGGTTTTAGTGGAGAATGTTGACGGAGGCGACGATCTCGATCTGATAGTTACAACCATGAATGGAAACGTCTACTGTTTCCAAACCCCAGTG
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atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaagcctcgagagctgctcgtgattacgtactgtttctttttttcgttacagATATACCATGGTTTTAGTGGAGAATGTTGACGGAGGCGACGATCTCGATCTGATAGTTACAACCATGAATGGAAACGTCTACTGTTTCCAAACCCCAGTG
ctgtttctttttttcg CT-rich tract
tttcttttttt TA-rich tract