Sequence
atgc intronic sequence ATGC exonic sequencegtatgaaaacttgtttcttttgtttgtttcgctgaagcttttgttttgcaacgttactctcttgtagAGGCGATTTCTGGCTGGGACAACGTGGTCATTGCGTACGAGCCTGTATGGGCTATCGGTACTGGCAAAGTCGCAACACCGCAGCAAGCGCAGGAAGTTCA
Basic information
species | Selaginella moellendorffii |
transcript | EFJ10235 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ10235 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: GLYMA19G36990.2 (Glycine max), 3'ss of exon 6
------------------------------gtatgaaaacttgtttcttttgttt-----gtttc----gctgaagcttttgtt------ttgca--acgttactctc------ttgtagAGGCGATTTCTGGCTGGGACAACGTGGTCATTGCGTACGAGCCTGTATGGGCTATCGGTACTGGCAAAGTCGCAACACCGCAGCAAGCGCAGGAAGTTCA
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gtagtggaagttatgtttcttatataatccatttaaaattcgttttcttttgatttagaagaaacaaaaggggaaggatttggtggttgattgcattacatcgtttgccattatttacagATGCAGTTCCTAGCTGGGACAACATTGTTATTGCATATGAACCTGTATGGGCTATTGGAACGGGCAAAGTGGCCACTCCCCAGCAAGCTCAGGAAGTACA
upper sequence: EFJ10235 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: GLYMA13G20930.1 (Glycine max), 3'ss of exon 6
-------------------------------------gtatgaaaacttgtttcttttgtttgtttcgctgaagcttttgttttgcaacgttactctcttgtagAGGCGATTTCTGGCTGGGACAACGTGGTCATTGCGTACGAGCCTGTATGGGCTATCGGTACTGGCAAAGTCGCAACACCGCAGCAAGCGCAGGAAGTTCA
| || | | | | | || | | ||| | || | || ||| || | | | ||||| || | || ||||| || |||||||||||||| || || ||||||||||| || ||||| ||||||| |||||||| ||
ttcattagaaagtcatcttctttttaggtggagaaaagaataggagcaagaggggatagcagattgtttccataacatccttt----atgtccattatgtgcagATGCAGTGCCAAGTTGGGATAATATAGTTATTGCATATGAGCCTGTATGGGCAATTGGAACTGGCAAAGTGGCCACACCCGAGCAAGCCCAGGAAGTCCA
upper sequence: EFJ10235 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: GLYMA10G06740.1 (Glycine max), 3'ss of exon 6
---------------------------------gtatgaaaacttgtttcttttgtttgtttcgctgaagcttttgt-tttgcaacgttactctcttgtagAGGCGATTTCTGGCTGGGACAACGTGGTCATTGCGTACGAGCCTGTATGGGCTATCGGTACTGGCAAAGTCGCAACACCGCAGCAAGCGCAGGAAGTTCA
| ||||| | | | ||| ||| | | | | || | || ||| | | | | ||||| || | || ||||| || |||||||||||||| || || ||||||||||| || ||||| ||||||| |||||||| ||
tttatttgaaagtcattttctttttaggtggagaaaagaaaagaagggggagtgggttgccg-attgattccataacatcctttatgtccattatatgcagATGTAGTGCCAAGTTGGGATAATATAGTTATTGCATATGAGCCTGTATGGGCAATTGGAACTGGCAAAGTGGCCACACCCGAGCAAGCCCAGGAAGTCCAMapped 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|169042476|gb|FE450970.1|FE450970EST: GGCTGGAAAGACATTTGATGTGGTCTTTGAGCAGCTCAAAGCTTTCGCTG AGGCGATTTCTGGCTGGGACAACGTGGTCATTGCGTACGAGCCTGTATGGG
genomic: GGCTGGAAAGACATTTGATGTGGTCTTTGAGCAGCTCAAAGCTTTCGCTGgtatgaaaac ... tctcttgtagAGGCGATTTCTGGCTGGGACAACGTGGTCATTGCGTACGAGCCTGTATGGG
EST:
gi|169042477|gb|FE450971.1|FE450971EST: GGCTGGAAAGACATTTGATGTGGTCTTTGAGCAGCTCAAAGCTTTCGCTG AGGCGATTTCTGGCTGGGACAACGTGGTCATTGCGTACGAGCCTGTATGGG
genomic: GGCTGGAAAGACATTTGATGTGGTCTTTGAGCAGCTCAAAGCTTTCGCTGgtatgaaaac ... tctcttgtagAGGCGATTTCTGGCTGGGACAACGTGGTCATTGCGTACGAGCCTGTATGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttcttttgtttgtttcgctgaagcttttgttttgcaacgttactctcttgtagAGGCGATTTCTGGCTGGGACAACGTGGTCATTGCGTACGAGCCTGTATGGGCTATCGGTACTGGCAAAGTCGCAACACCGCAGCAAGCGCAGGAAGTTCA
ttactctctt CT-rich tract
ttttgtttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaaaacttgtttcttttgtttgtttcgctgaagcttttgttttgcaacgttactctcttgtagAGGCGATTTCTGGCTGGGACAACGTGGTCATTGCGTACGAGCCTGTATGGGCTATCGGTACTGGCAAAGTCGCAACACCGCAGCAAGCGCAGGAAGTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG