Sequence
atgc intronic sequence ATGC exonic sequencegtgggtttctctattttaatattgattatttattatattcttggtgtttccttcattgatactccaatcttcatttttaaattatttgtttatttatttatttattttgtatatgaggttgtgatactaatgccttcaaacttttgatcttcctttttatcgtttttttcttatagGACAAGATACTTCTCTCAGCCTAGGAAGGGACACAACCCACTTCAAGGAAGAGCATACTACCAACTCCTAGAATGTCTTGGG
Basic information
species | Glycine max |
transcript | GLYMA16G05340.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G05340.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G08660.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgggtttctctattttaatattgattatttattatattcttggtgtttccttcattgatactccaatcttcatttttaaattatttgtttatttatttatttattttgtatatgaggttgtgatactaatgccttcaaacttttgatcttcctttttatcgtttttttct-tatagGACAAGATACTTCTCTCAGCCTAGGAAGGGACACAACCCACTTCAAGGAAGAGCATACTACCAACTCCTAGAATGTCTTGGG
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----------------------------------------------------gcaagtatcttaaataacttttatccatattgctatctctcatattt-ccaaagctctttgggaggttg-gatacttacgattctgatcatat--ttttcctttgtatctttattatcaatgtagGACGCGTTACTTTTCCACGCCAAGGAAAGGGCACAACCCACTTCAAGGAAGGGCATACTACCAACTTCTAGAGTGTCTTGGT
upper sequence: GLYMA16G05340.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G08660.2 (Arabidopsis thaliana), 3'ss of exon 9
gtgggtttctctattttaatattgattatttattatattcttggtgtttccttcattgatactccaatcttcatttttaaattatttgtttatttatttatttattttgtatatgaggttgtgatactaatgccttcaaacttttgatcttcctttttatcgtttttttct-tatagGACAAGATACTTCTCTCAGCCTAGGAAGGGACACAACCCACTTCAAGGAAGAGCATACTACCAACTCCTAGAATGTCTTGGG------------------
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----------------------------------------------------gcaagtatcttaaataacttttatccatattgctatctctcatattt-ccaaagctctttgggaggttg-gatacttacgattctgatcatat--ttttcctttgtatctttattatcaatgtagGACGCGTTACTTTTCCACGCCAAGGAAAGGGCACAACCCACTTCAAGGAAGGGCATACTACCAACTTCTAGAGTGTCTTGGTGTACAGATAACTTGTTAA
upper sequence: GLYMA16G05340.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv14s0068g01150.t01 (Vitis vinifera), 3'ss of exon 9
gtgggtttctctattttaatattgattatttattatattcttggtgtttccttcattgatactccaatcttcatttttaaattatttgtttatttatt-tatttattttgtatatgaggttgtgatactaatgccttcaaacttttgatcttcctttttatcgtttttttcttatagGACAAGATACTTCTCTCAGCCTAGGAAGGGACACAACCCACTTCAAGGAAGAGCATACTACCAACTCCTAGAATGTCTTGGG
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----------------------------------------------------------------------tccttattgatttagaggctttcttctcatgcttgttaaactgatgggatattgtttatcttcctttc--ccttttgactagttttatgata-----tttctcatagGACCCGATACTTCTCTACACCAAGGAAAGGACACAATCCACTTCAAGGAAGGGCATATTACCAGCTCCTAGAGTGCCTTGGGMapped 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|193600295|gb|FK551176.1|FK551176EST: GATATTATTGATATATATGGCTTCACTGTTGATCCAGGATACACTGAATG GACAAGATACTTCTCTCAGCCT
genomic: GATATTATTGATATATATGGCTTCACTGTTGATCCAGGATACACTGAATGgtgggtttct ... tttcttatagGACAAGATACTTCTCTCAGCCT
EST:
gi|298181752|gb|HO025927.1|HO025927EST: GATATTATTGATATATATGGCTTCACTGTTGATCCAGGATACACTGAATG GACAAGATACTTCTCTCAGCCTAGGAAGGGACACGACCCACTTCAAGGAAG
genomic: GATATTATTGATATATATGGCTTCACTGTTGATCCAGGATACACTGAATGgtgggtttct ... tttcttatagGACAAGATACTTCTCTCAGCCTAGGAAGGGACACAACCCACTTCAAGGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatactaatgccttcaaacttttgatcttcctttttatcgtttttttcttatagGACAAGATACTTCTCTCAGCCTAGGAAGGGACACAACCCACTTCAAGGAAGAGCATACTACCAACTCCTAGAATGTCTTGGG
cttttgatcttccttt CT-rich tract
tttttatcgttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgggtttctctattttaatattgattatttattatattcttggtgtttccttcattgatactccaatcttcatttttaaattatttgtttatttatttatttattttgtatatgaggttgtgatactaatgccttcaaacttttgatcttcctttttatcgtttttttcttatagGACAAGATACTTCTCTCAGCCTAGGAAGGGACACAACCCACTTCAAGGAAGAGCATACTACCAACTCCTAGAATGTCTTGGG
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