Sequence
atgc intronic sequence ATGC exonic sequencegtttgtcttagctgaattttatttctggtgtaatctaggtcttattaggaagcttttgttaatgaaatgatgttttcatgttgctttttaatttacatacaaggacatttccatttatgaatatgtacagtgatcctgtttgtgcaatgctttaatatggattcatgcagGAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGGTGATTTAAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACTGCT
Basic information
species | Glycine max |
transcript | GLYMA15G11890.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os06g13810.1 (Oryza sativa), 3'ss of exon 5
gtttgtcttagctgaattttatttctggtgtaatctaggtcttattaggaagcttttgttaatgaaatgatgttttcatgttgctttttaatttacatacaaggacatttccatttatgaatatgtacagtgatcctgtttgtgcaatgctttaatatggattcatgcagGAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGGTGATTTAAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACTGCT
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--------------------------------------------------------------------aattctgcaacatagagaatctagatattattctcgatagttttattggc-aatattaactatatgcttgttgaca-agtgagtgattgtttaactttgtagGGGGAAGAACATGAAAACTCGTGTCATTGGTTGCCCAAAGACTATTGATGGAGATCTGAAATGCAAGGAGGTTCCAACAAGCTTTGGGTTTGACACTGCT
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G12000.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttgtcttagctgaattttatttctggtgtaatctaggtcttattaggaagcttttgttaatgaaatgatgttttcatgttgctttttaatttacatacaaggacatttccatttatgaatatgtacagtgatcctgtttgtgcaatgctttaatatggattcatgcagGAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGGTGATTTAAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACTGCT
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-----------gtaaaccttgcagttg----aatctg----ttatgttgaaacttatttatcttaggcgaaagta----gttgttcttgaagatccatgtgaccagaatct------ttaatatttgc--tgattcagcatttg-acttattatctacttgtataattagGAGTAAGAACTTGAAAACCCGAGTCATTGGGTGCCCCAAGACCATTGATGGTGATTTGAAATGCAAAGAGGTTCCTACTAGTTTTGGGTTTGATACAGCT
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G04040.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttgtcttagctgaattttatttctggtgtaatctaggtcttattaggaagcttttgttaatgaaatgatgttttcatgttgctttttaatttacatacaaggacatttccatttatgaatatgtacagtgatcctgtttgtgcaatgctttaatatggattcatgcagGAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGGTGATTTAAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACTGCT
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------------------------------------------------------------------gtaattttttgaaattg---tttaagattaatg-agactcacttctctctgt---tttgtgttttaat---gtttg------gtttcctattcggtt--ttcagAGCTAAAAACATGAAAACTCTGGTTATTGGATGCCCTAAGACAATCGATGGTGATTTAAAGAGCAAAGAAGTCCCCACGAGTTTCGGGTTTGATACTGCT
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 3'ss of exon 5
gtttgtcttagctgaattttatttctggtgtaatctaggtcttattaggaagcttttgttaatgaaatgatgttttcatgt-tgctttttaatttacatacaaggacatttccatttatgaatatgtacagtgatcctgtttgtgcaatgctttaatatggattcatgcagGAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGGTGATTTAAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACTGCT
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-----------------------------------------------------------------tgttaaattcagaaatctactatgtgatcatcagaataagaactgactctttagtaatcagtgatttgtttaactttatttgat-ctatctgacaaat-----cagGGGTAAAAATATGAAAGCTCGGGTGATTGGATGCCCAAAGACCATTGATGGTGATTTGAAATGCAAGGAGGTTCCCACAAGTTTTGGATTTGATACTGCAMapped 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|16347925|gb|BI973520.1|BI973520EST: GGTGGTGATGACTCAAACACCAATGCATGCCTCCTTGCTGAGAACTTCAG GAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGG
genomic: GGTGGTGATGACTCAAACACCAATGCATGCCTCCTTGCTGAGAACTTCAGgtttgtctta ... attcatgcagGAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGG
EST:
gi|17021880|gb|BM092914.1|BM092914EST: GGTGGTGATGACTCAAACACCAATGCATGCCTCCTTGCTGAGAACTTCAG GAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGG
genomic: GGTGGTGATGACTCAAACACCAATGCATGCCTCCTTGCTGAGAACTTCAGgtttgtctta ... attcatgcagGAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGG
EST:
gi|12773861|gb|BG238788.1|BG238788EST: ATGCCTCCTTGCTGAGAACTTCAG GAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGG
genomic: ATGCCTCCTTGCTGAGAACTTCAGgtttgtctta ... attcatgcagGAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgaatatgtacagtgatcctgtttgtgcaatgctttaatatggattcatgcagGAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGGTGATTTAAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACTGCT
ctttaat putative branch site (score: 4)
tttaatat 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 |
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gtttgtcttagctgaattttatttctggtgtaatctaggtcttattaggaagcttttgttaatgaaatgatgttttcatgttgctttttaatttacatacaaggacatttccatttatgaatatgtacagtgatcctgtttgtgcaatgctttaatatggattcatgcagGAGCAAAAATTTAAAAACAAGTGTAATTGGATGCCCTAAAACCATTGATGGTGATTTAAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACTGCT
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