Sequence
atgc intronic sequence ATGC exonic sequencegtttgtataaagtcagcaaattgttgcgtgcttctatcactgtcttcacggaatttgcttgattaatttggtttaatctcaatctttttgagcctccatgtttaccaaagttccaaatgctcttacccagGTGAGCCCATCAGGATGGTCAGAAGGAGAATGCAACGGTAAAGCAGGATGGTTTCCTTCCGCATATGTGGAGAAACGACAAAGAATCCCCTCTAGCAATA
Basic information
species | Glycine max |
transcript | GLYMA08G12810.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G12810.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0003g02590.t01 (Vitis vinifera), 3'ss of exon 9
gtttgtataaagtcagcaaattgttgcgtgcttctatcactgtcttcacggaatttgcttgattaatttggtttaatctcaatctttttgagcctccatgtttaccaaagttccaaatgctcttacccagGTGAGCCCATCAGGATGGTCAGAAGGAGAATGCAACGGTAAAGCAGGATGGTTTCCTTCCGCATATGTGGAGAAACGACAAAGAATCCCCTCTAGCAATA
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------------------------agaacacagctttca-tgtcaaaatgaa---tgtttgttatttgtgatatgaaaggta-cagtttaattgttcattgctctttaaacttcatat-ctattgcttagGTGAGCCATACAGGATGGTCAGAAGGAGAATGCAAAGGTAAAGCAGGCTGGTTTCCATCAGAGTACGTGGCAAAACGTCAAAGGCTTCCCACCAGTAATG
upper sequence: GLYMA08G12810.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ27680 (Selaginella moellendorffii), 3'ss of exon 8
gtttgtataaagtcagcaaattgttgcgtgcttctatcactgtcttcacggaatttgcttgattaatttggtttaatctcaatctttttgagcctccatgtttaccaaagttccaaatgctcttacccagGTGAGCCCATCAGGATGGTCAGAAGGAGAATGCAACGGTAAAGCAGGATGGTTTCCTTCCGCATATGTGGAGAAACGACAAAGAATCCCCTCTAGCAATA
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--------------------------------------------------------------------------------gtgggtgacgagccaaagtcattgaatgaatgaacgtttttcttttgcagGTTTCTACCACTGGCTGGTCAGAAGGAGAATGTAAAGGCAAAGCGGGATGGTTTCCATCTACGTATGTGGAGCGCAGGCAGCGTGTTCCTGCTAGCAAAG
upper sequence: GLYMA08G12810.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ37265 (Selaginella moellendorffii), 3'ss of exon 8
gtttgtataaagtcagcaaattgttgcgtgcttctatcactgtcttcacggaatttgcttgattaatttggtttaatctcaatctttttgagcctccatgtttaccaaagttccaaatgctcttacc---cagGTGAGCCCATCAGGATGGTCAGAAGGAGAATGCAACGGTAAAGCAGGATGGTTTCCTTCCGCATATGTGGAGAAACGACAAAGAATCCCCTCTAGCAATA
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-----------------------------------------------------------------------------------gtgggtgacgagccaaagtcattgaatgaatgaacgtttttctttggcagGTTTCTACCACTGGCTGGTCAGAAGGAGAATGTAAAGGCAAAGCGGGATGGTTTCCATCTACGTATGTGGAGCGCAGGCAGCGTGTTCCTGCTAGCAAAGMapped 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|58014844|gb|CX701586.1|CX701586EST: CAGAAAAGGAGCTGAGTTTTTCGAAGGGTGATTTTGTTGTTGTGCGAAAG GTGAGCCCATCAGGATGGTCAGAAGGAGAATGCAACGGTAAAGCAGGATGG
genomic: CAGAAAAGGAGCTGAGTTTTTCGAAGGGTGATTTTGTTGTTGTGCGAAAGgtttgtataa ... tcttacccagGTGAGCCCATCAGGATGGTCAGAAGGAGAATGCAACGGTAAAGCAGGATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctcaatctttttgagcctccatgtttaccaaagttccaaatgctcttacccagGTGAGCCCATCAGGATGGTCAGAAGGAGAATGCAACGGTAAAGCAGGATGGTTTCCTTCCGCATATGTGGAGAAACGACAAAGAATCCCCTCTAGCAATA
ctcttac putative branch site (score: 3)
ctcttaccc CT-rich tract
aatcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtataaagtcagcaaattgttgcgtgcttctatcactgtcttcacggaatttgcttgattaatttggtttaatctcaatctttttgagcctccatgtttaccaaagttccaaatgctcttacccagGTGAGCCCATCAGGATGGTCAGAAGGAGAATGCAACGGTAAAGCAGGATGGTTTCCTTCCGCATATGTGGAGAAACGACAAAGAATCCCCTCTAGCAATA
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