Sequence
atgc intronic sequence ATGC exonic sequenceGCAAGAGGCTGCTGGTGCACTTTGGAATTTGTCATTTGACGATAGAAATCGAGAGGCCATTGCTGCAGCTGGAGGAGTTCAGGCCTTGgtaagttttgtaccatgtaaagccaactttatttaaatagaattatagaaaaaatggatagtattaaatagatatagaaagatacaagggatgataaaaa...
Basic information
species | Glycine max |
transcript | GLYMA18G48840.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G48840.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os10g41360.1 (Oryza sativa), 5'ss of exon 6
GCAAGAGGCTGCTGGTGCACTTTGGAATTTGTCATTTGACGATAGAAATCGAGAGGCCATTGCTGCAGCTGGAGGAGTTCAGGCCTTGgtaagt------tttgtaccatg-taaagcca-actttatttaaatagaattatag-aaaaaatggatagtattaaatagatatagaaagatacaagggatgataaaaa
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ACAAGAAGCTGCTGGTGCTCTGTGGAATCTGTCATTTGATGATAGAAACCGTGAAGGCATTGCTGCTGCGGGTGGCGTTGAAGCTTTGgtacgtgccccatttgtgctttaacacagctttgcatcctttgatcaacattgtattaagcagtacatctagttcagtaaatagatgcaatccctctata---------
upper sequence: GLYMA18G48840.1 (Glycine max), 5'ss of exon 6
lower sequence: AT2G44900.1 (Arabidopsis thaliana), 5'ss of exon 6
------------GCAAGAGGCTGCTGGTGCACTTTGGAATTTGTCATTTGACGATAGAAATCGAGAGGCCATTGCTGCAGCTGGAGGAGTTCAGGCCTTGgtaagttttgtacc-atgtaaagcca--actttatttaaatagaattatagaaaaaatggatagtattaaatagatatagaaagatacaagggatgataaaaa
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TGAAGGAGTTAGACAAGAAGCTGCTGGTGCTCTATGGAATTTGTCGTTTGATGATAAGAATCGAGAATCTATCTCTGTAGCTGGTGGTGTTGAAGCTTTGgtatgcttccagtttgtttagtatgattacactgttcctctgcatatataaggggaattgatcacttttgttgattattttag--------------------
upper sequence: GLYMA18G48840.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv15s0021g01810.t01 (Vitis vinifera), 5'ss of exon 7
GCAAGAGGCTGCTGGTGCACTTTGGAATTTGTCATTTGACGATAGAAATCGAGAGGCCATTGCTGCAGCTGGAGGAGTTCAGGCCTTGgtaagttttgtaccatgtaaagccaactttatttaaatagaatt-atagaaaaa--atggatagtattaaatagatatagaaagatacaagggatgataaaaa
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GCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTGgtatgatattctccttgttagcctcaaatctcttaaatgaaattcacagttcttctgtgggaagtgctttgtagg-atatgcttgcattaagttccttaag--
upper sequence: GLYMA18G48840.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ24022 (Selaginella moellendorffii), 5'ss of exon 6
GCAAGAGGCTGCTGGTGCACTTTGGAATTTGTCATTTGACGATAGAAATCGAGAGGCCATTGCTGCAGCTGGAGGAGTTCAGGCCTTGgtaagttttgtaccatgtaaagccaactttatttaaatagaattatagaaaaaatggatagtattaaatagatatagaaagatacaagggatgataaaaa
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GCAAGAAGCTGCTGGCGCCCTTTGGAACTTGTCATTTGACGACAGAAATCGGGAGGCAATTGCTGCAGCTGGTGGTGTTGAGGCATTGgtaagtttca-actaacttcgttctcttgtctttggtcctcactgtgaactgcttgtgaag---------------------------------------
upper sequence: GLYMA18G48840.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ24586 (Selaginella moellendorffii), 5'ss of exon 6
GCAAGAGGCTGCTGGTGCACTTTGGAATTTGTCATTTGACGATAGAAATCGAGAGGCCATTGCTGCAGCTGGAGGAGTTCAGGCCTTGgtaagttttgtaccatgtaaagccaactttatttaaatagaattatagaaaaaatggatagtattaaatagatatagaaagatacaagggatgataaaaa
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GCAAGAAGCTGCTGGCGCCCTGTGGAACTTGTCATTTGACGACAGAAATCGGGAGGCAATTGCTGCAGCTGGTGGTGTTGAGGCATTGgtaagtttcaccttac-ttcgttctcttgtctatggtcctcactgtgaactgcttgtgaag---------------------------------------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|16997277|gb|BM086649.1|BM086649EST: ACGATAGAAATCGAGAGGCCATTGCTGCAGCTGGAGGAGTTCAGGCCTTG GTTGCTCTTGCCCAAGCTTGTGCTAATGCCTCCCCTGGACTTCAAGAGAGG
genomic: ACGATAGAAATCGAGAGGCCATTGCTGCAGCTGGAGGAGTTCAGGCCTTGgtaagttttg ... gtttatatagGTTGCTCTTGCCCAAGCTTGTGCTAATGCCTCCCCTGGACTTCAAGAGAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAAGAGGCTGCTGGTGCACTTTGGAATTTGTCATTTGACGATAGAAATCGAGAGGCCATTGCTGCAGCTGGAGGAGTTCAGGCCTTGgtaagttttgtaccatgtaaagccaactttatttaaatagaattatagaaaaaatggatagtattaaatagatatagaaagatacaagggatgataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaaaaa