Sequence
atgc intronic sequence ATGC exonic sequencegtaatgcagtgctttcatctctgtatattgttattgaattgttatagacttcttttctacctttgctttactcttttcctctgcagATATGGGACTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
Basic information
species | Glycine max |
transcript | GLYMA07G01230.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01230.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g39310.3 (Oryza sativa), 3'ss of exon 8
gtaatgcagtgctttcatctctgtatattgttattgaattgttatagacttcttttctacctt---tgctttactcttttcctct----gcagATATGGGACTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
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-----gta-tgcatttacttgagagcccttttcctgtctgcct---gacctttcttccattttaaatacactaatcttttcgtcttgctgcagATATGGGATGGTGTCCCTAAACCCCATGCCCACAAGGAAACTCCACTGAGTGAATTTTTCAAT
upper sequence: GLYMA07G01230.1 (Glycine max), 3'ss of exon 8
lower sequence: AC196426.3_FGT007 (Zea mays), 3'ss of exon 7
gtaatgcagtgctttcatctctgtatattgttattgaattgttatagacttcttttctaccttt-gctttactcttttcctctgcagATATGGGACTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
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gta-tgtgttttgttgataccc-tgttttcttttgagacatttgtgtttttgtggcctataataagctgtatacatttttgctgcagATATGGGATGCTGTTCCGAAACCCCATGCCCATAAAGAAACTCCAATTAGTGAATTTTTCGAT
upper sequence: GLYMA07G01230.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 3'ss of exon 8
gtaatgcagtgctttcatctctgtatattgttattgaattgttatagacttcttttctacctttgctttactcttttcctctgcagATATGGGACTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
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gtaaagaatttgttgtttccttgtttatt-ttattaa----ccatgagttgttgattttgtaatgtgtt-cttttactgtatgcagATATGGGACTCTGTTCCTAAGCCACAAGCACATAAGGAAACTCCGCTGAGTGAATTTTTTAATMapped 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|209704689|gb|BW656667.1|BW656667EST: ACACCACTTGAAAATTTAGAACCTGTTTTGCGAGAAGATATTCAGAAG ATATGGGACTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGT
genomic: ACACCACTTGAAAATTTAGAACCTGTTTTGCGAGAAGATATTCAGAAGgtaatgcagt ... tcctctgcagATATGGGACTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgaattgttatagacttcttttctacctttgctttactcttttcctctgcagATATGGGACTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
cttcttttctaccttt CT-rich tract
aattgttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgcagtgctttcatctctgtatattgttattgaattgttatagacttcttttctacctttgctttactcttttcctctgcagATATGGGACTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA