Sequence
atgc intronic sequence ATGC exonic sequence...aagaatttggggagctttttctgctttccatttatggcttaatttgctcagccaattgtagtgttagcaattaatggtaattcttataaatgtcttgcagCTTCCACGGTTGTACAATGTGTACAAAGAAATGGGAATTGTGACATCATTCCAGAACATGCTTGACAATATTTTTATTCCACTTTTTGAGGTCACTGTCA
Basic information
species | Glycine max |
transcript | GLYMA03G07460.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G07460.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os05g28180.3 (Oryza sativa), 3'ss of exon 3
aagaatttggggagctttttctgctttccatttatggcttaatttgctcagccaattgtagtgttagcaatta-atggtaattcttataaatgtctt-gcagCTTCCACGGTTGTACAATGTGTACAAAGAAATGGGAATTGTGACATCATTCCAGAACATGCTTGACAATATTTTTATTCCACTTTTTGAGGTCACTGTCA
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--tattcaaagtggtatacacctcgttatgttactgatatatttatgatatttgatattcggagttgcattcagataattgtttttctacattcctttgcagATCCCACGCTTATATAATGTGTACAAGGAAATGGGTATTGTTACATCATTCCAAACTCTTCTGGACAACATTTTCCTTCCTCTGTTTGAGGTCACCATTG
upper sequence: GLYMA03G07460.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G416667_T01 (Zea mays), 3'ss of exon 11
-aagaatttggggagctttttctgctttccatttatggcttaatttgctcagccaattgtagtgttagcaattaatggtaattcttataaatgt---cttgcagCTTCCACGGTTGTACAATGTGTACAAAGAAATGGGAATTGTGACATCATTCCAGAACATGCTTGACAATATTTTTATTCCACTTTTTGAGGTCACTGTCA
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tcttaaccatgacaatgttacctttttccc--cagtgaaatatttagtgcaa--aaacattacattattcttttctgatatattttgtggacattcttttgcagATTCCACGCTTATATAATGTGTACAAGGAAATGGGTATCGTTACATCATTCCAAAATCTTCTTGACAACATTTTCGTTCCTCTTTTTGAGGTTACTATTG
upper sequence: GLYMA03G07460.1 (Glycine max), 3'ss of exon 11
lower sequence: AT2G38280.1 (Arabidopsis thaliana), 3'ss of exon 11
-------------------------------aagaatttggggagctttttctgctttccatttatggcttaatttg---ctcagccaattgtagtgttagcaattaatggtaattcttataaatgtcttgcagCTTCCACGGTTGTACAATGTGTACAAAGAAATGGGAATTGTGACATCATTCCAGAACATGCTTGACAATATTTTTATTCCACTTTTTGAGGTCACTGTCA
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gttagccatctctttgatacttgtgtgctccatgtccttccatgagtgtatgtgttttttttgtctccgtgtgtttgtaacatgactgctaactgagctatattttccttgttttctgtttgtctgctcactagCTCCCACGCTTGTACAACATTTACAAGGACATGGGTATTGTGACATCGTTCCAGAATATCCTGGACAATATATTCATTCCTCTGTTTGAAGCCACGGTAG
upper sequence: GLYMA03G07460.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv08s0105g00570.t01 (Vitis vinifera), 3'ss of exon 11
aagaatttggggagctttttctgctttccatttatggcttaatttgctca-gccaattgtag-----tgttagcaat-taatggta-attcttataaatgtcttgcagCTTCCACGGTTGTACAATGTGTACAAAGAAATGGGAATTGTGACATCATTCCAGAACATGCTTGACAATATTTTTATTCCACTTTTTGAGGTCACTGTCA
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--------ctggaatgtatctaacctgacattctggggtttgttagcaaaagcaaaatgttggattttgttattgttcttatggtataatatccttctgtttttccagCTTCCCCGGCTGTATAATGTGTACAAGGATATGGGAATTGTTACATCATTTCAGAACATGCTGGACAATATCTTTCTTCCCCTGTTTGAGGTTACTGTGAMapped 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|15813627|gb|BI785902.1|BI785902EST: GGATAGTGAATAATGATTTGTACAGTGAGAATGTTGTATGGTTGATTCAG CTTCCACGGTTGTACAATGTGTACAAAGAAATGGGAATTGTGACATCATTC
genomic: GGATAGTGAATAATGATTTGTACAGTGAGAATGTTGTATGGTTGATTCAGgtattcttta ... tgtcttgcagCTTCCACGGTTGTACAATGTGTACAAAGAAATGGGAATTGTGACATCATTC
EST:
gi|9565697|gb|BE475206.1|BE475206EST: GGATAGTGAATAATGATTTGTACAGTGAGAATGTTGTATGGTTGATTCAG CTTCCACGGTTGTACAATGTGTACAAAGAAATGGGAATTGTGACATCATTC
genomic: GGATAGTGAATAATGATTTGTACAGTGAGAATGTTGTATGGTTGATTCAGgtattcttta ... tgtcttgcagCTTCCACGGTTGTACAATGTGTACAAAGAAATGGGAATTGTGACATCATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctcagccaattgtagtgttagcaattaatggtaattcttataaatgtcttgcagCTTCCACGGTTGTACAATGTGTACAAAGAAATGGGAATTGTGACATCATTCCAGAACATGCTTGACAATATTTTTATTCCACTTTTTGAGGTCACTGTCA
aattaat putative branch site (score: 3)
aattaatggtaattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagaatttggggagctttttctgctttccatttatggcttaatttgctcagccaattgtagtgttagcaattaatggtaattcttataaatgtcttgcagCTTCCACGGTTGTACAATGTGTACAAAGAAATGGGAATTGTGACATCATTCCAGAACATGCTTGACAATATTTTTATTCCACTTTTTGAGGTCACTGTCA
- - - -tggggag
- - - - - - - - - ttctgct
- - - - - - - - - - - - - -ccattta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtagtg