Sequence
atgc intronic sequence ATGC exonic sequenceAATATTGACCCCTACACATTTGGCTATTGTGATGGAATACGCTTCTGGAGGAGAGTTATTTGAGCGGATATGCAATGCAGGACGGTTTAGTGAGGATGAGgttcttatctattcctttcatgcatttttgttgcagtgctgttgcagttaccgcttaccatttatgtctattatgttttgttgcag
Basic information
species | Glycine max |
transcript | GLYMA20G01240.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G01240.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv03s0063g01080.t01 (Vitis vinifera), 5'ss of exon 3
AATATTGACCCCTACACATTTGGCTATTGTGATGGAATACGCTTCTGGAGGAGAGTTATTTGAGCGGATATGCAATGCAGGACGGTTTAGTGAGGATGAGgttcttatctattcctttcatgcatttttgttgcagtgctgttgcagttaccgcttaccatttatgtctattatgttttgttgcag
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TATATTGACACCAACCCACCTTGCTATTGTGATGGAATATGCCTCTGGAGGAGAGCTCTTTGAGCGGATATGCAATGCCGGCCGGTTCAGTGAGGATGAGgttcttatgcaacttgctcatttggttttctgttactctcctcgcact---cgtttatggcttaccttctctagcttgtactgcag
upper sequence: GLYMA20G01240.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S116_98V6.1 (Physcomitrella patens), 5'ss of exon 3
AATATTGACCCCTACACATTTGGCTATTGTGATGGAATACGCTTCTGGAGGAGAGTTATTTGAGCGGATATGCAATGCAGGACGGTTTAGTGAGGATGAGgttcttatctattcctttcatgcatttttgttgcagtgctgttgcagttaccgct---taccatttatgtctattatgttttgttgcag
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CATGTTGACTCCAACCCACTTGGCCATTGTGATGGAATATGCTGCTGGTGGAGAGCTGTTTGAGCGAATTTGTAAAGCAGTCCGGTTCAGTGAAGATGAGgtattggaatcatcattttgttgactctgcctgaattcttggttctctttgtgcaaggtataacacttgcttacctt-ttgtgttgcag
upper sequence: GLYMA20G01240.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S218_59V6.1 (Physcomitrella patens), 5'ss of exon 3
AATATTGACCCCTACACATTTGGCTATTGTGATGGAATACGCTTCTGGAGGAGAGTTATTTGAGCGGATATGCAATGCAGGACGGTTTAGTGAGGATGAGgt---tcttatctattcctttcatgcattttt-gttgcagtgctgttgcagttaccgcttaccatttat-gtctattatgttttgttgcag------------------------------------
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CATGCTGACTCCAACCCATTTGGCTATTGTTATGGAATATGCTGCTGGTGGAGAACTTTTTGAGCGAATCTGTAACGCAGGCCGCTTCAGTGAAGATGAGgtctgttttatttttgttttgtttttattttttgtttttgtttttatttgattgtttgtgtcaatgcgtagtttgtgaagattgatcaaatgtttttcttacagagatatgatatgttgtgttgcag
upper sequence: GLYMA20G01240.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S113_72V6.1 (Physcomitrella patens), 5'ss of exon 3
AATATTGACCCCTACACATTTGGCTATTGTGATGGAATACGCTTCTGGAGGAGAGTTATTTGAGCGGATATGCAATGCAGGACGGTTTAGTGAGGATGAGgttcttatc--tattcct----ttcatgcatttttgttgcagtgctgttgcagttaccgcttaccatttatgtctattatgttttgttgcag-------
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CATGTTGACCCCGACCCATTTGGCCATTGTGATGGAATATGCGGCGGGTGGAGAGCTGTTTGAGCGAATTTGTAATGCTGGTCGGTTCAGCGAAGATGAGgtcggtaatattattcccagtattcgtgcatatttttcaaagacttcggatattttgtgcagagatttgatatgcgacgtgttgtgtattgtgtgacagMapped 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|18041406|gb|BM309700.1|BM309700EST: GAGAGTTATTTGAGCGGATATGCAATGCAGGACGGTTTAGTGAGGATGAG GCACGCTTCTTCTTCCAACAACTTATATCAGGGGTTAGCTACTGTCATGCA
genomic: GAGAGTTATTTGAGCGGATATGCAATGCAGGACGGTTTAGTGAGGATGAGgttcttatct ... tttgttgcagGCACGCTTCTTCTTCCAACAACTTATATCAGGGGTTAGCTACTGTCATGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATATTGACCCCTACACATTTGGCTATTGTGATGGAATACGCTTCTGGAGGAGAGTTATTTGAGCGGATATGCAATGCAGGACGGTTTAGTGAGGATGAGgttcttatctattcctttcatgcatttttgttgcagtgctgttgcagttaccgcttaccatttatgtctattatgttttgttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG