Sequence
atgc intronic sequence ATGC exonic sequenceGTTATAAGAAGCATGTGAAAGAGATTAAAAGGCCAGGAGAAACAATTATCAAAGGACACAGGAGCTATGATCTTATGCTGAATTTGCAGCTGGGAATAAGgtaccatctatcctgaggtttcagagttttaatcgtgtttgtacgtcgtgttcag
Basic information
species | Selaginella moellendorffii |
transcript | EFJ34272 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ34272 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os02g57660.1 (Oryza sativa), 5'ss of exon 2
GTTATAAGAAGCATGTGAAAGAGATTAAAAGGCCAGGAGAAACAATTATCAAAGGACACAGGAGCTATGATCTTATGCTGAATTTGCAGCTGGGAATAAGgta--ccatctatcct-------gaggtttcagagttttaatcgtgtttgtacgtcgtgttcag------------------------------------
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GCCAGAAGAAAATTGTTAGGGAGACAAAAAAGCCAGGAGAGACAATAATTAAGGGTCACAGAAGCTATGATCTTATGCTCAGTCTACAGCTTGGAATCAGgtaatccctctgagttcggcatcgtagttgcaagatttgaatgacatctgttcgttaatttctttggtcccactaatactgtcctgacctactctcttct
upper sequence: EFJ34272 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA03G34340.1 (Glycine max), 5'ss of exon 1
GTTATAAGAAGCATGTGAAAGAGATTAAAAGGCCAGGAGAAACAATTATCAAAGGACACAGGAGCTATGATCTTATGCTGAATTTGCAGCTGGGAATAAGgtacca---tctatcctgaggtttcagagttttaatcgtgtttgtacgtcgtgttcag------------------------------------------
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TTCAAAAAAAGCTTGTCAAAGAGATTAAAAGACCTGGTGAGGCAATCATTAAAGGTCACAGGAGTTATGATCTGATGCTCAGTTTGCAGCTTGGAATAAGgtaaatggcactattttgatttgtagcacactcaagccgctttacttgttataatttgttacaatgctgcatgatttttctctgcaagtatctacatgct
upper sequence: EFJ34272 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA13G20980.1 (Glycine max), 5'ss of exon 2
GTTATAAGAAGCATGTGAAAGAGATTAAAAGGCCAGGAGAAACAATTATCAAAGGACACAGGAGCTATGATCTTATGCTGAATTTGCAGCTGGGAATAAGgtacca---tctatcctgaggtttcagagttttaatcgtgtttgtacgtcgtgttcag------------------------------------------
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TTCAAAAAAAAATTGCCAAAGAAATTAAAAGACCCGGTGAAGCAATCATTAAAGGTCACAGGAGCTATGATCTGATGCTTAGTTTACAGCTTGGAATAAGgtaaaagacactaccttgactttttgtacactcttgtatctttagttgttatcctttgtaacaatgctacatgacttttctttctgcaatatgctgcatt
upper sequence: EFJ34272 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA10G06800.1 (Glycine max), 5'ss of exon 2
GTTATAAGAAGCATGTGAAAGAGATTAAAAGGCCAGGAGAAACAATTATCAAAGGACACAGGAGCTATGATCTTATGCTGAATTTGCAGCTGGGAATAAGgtaccat----ctatcctgaggtttcaga-gttttaatcgtgtttgtacgtcgtgttcag----------------------------------------
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TCCAAAAAAAACTTGCCAAAGAAATTAAAAGACCTGGTGAAGCAATCATTAAAGGTCACCGGAGCTATGATCTGATGCTTAGTTTGCAGCTCGGAATAAGgtataaagacactaccttgactttttgcacactcttgtagctttagttgtaaagcttcaactttcagattgttttcccatttccttagagactcactaaa
upper sequence: EFJ34272 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: Vv08s0007g04700.t01 (Vitis vinifera), 5'ss of exon 1
GTTATAAGAAGCATGTGAAAGAGATTAAAAGGCCAGGAGAAACAATTATCAAAGGACACAGGAGCTATGATCTTATGCTGAATTTGCAGCTGGGAATAAGgta------ccatctatcctgaggtttcagagttttaatcgtgtttgtacgtcgtgttcag---------------------------------------
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GGCAGAAGAAACTTACAAAGGATGTAAAGAGGCCAGGTGAAGCAATCATTAAAGGTCACAGGAGCTATGATCTAATGCTCAGTTTGCAGCTTGGAATACGgtatactcactgtttcttctctggttatgttcctgtactgagataattatattttcctaatttaatacatcttcttatcttttcttatttgttgcatcttMapped 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|169116044|gb|FE517407.1|FE517407EST: AAAGGACACAGGAGCTATGATCTTATGCTGAATTTGCAGCTGGGAATAAG GTATACTGTGGGAAAGATAACACCTGAGCCAAAGCATGATATTGAACCTTC
genomic: AAAGGACACAGGAGCTATGATCTTATGCTGAATTTGCAGCTGGGAATAAGgtaccatcta ... tcgtgttcagGTATACTGTGGGAAAGATAACACCTGAGCCAAAGCATGATATTGAACCTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTATAAGAAGCATGTGAAAGAGATTAAAAGGCCAGGAGAAACAATTATCAAAGGACACAGGAGCTATGATCTTATGCTGAATTTGCAGCTGGGAATAAGgtaccatctatcctgaggtttcagagttttaatcgtgtttgtacgtcgtgttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG