Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgatttcaaattaacttaatttacctgctcctatgctgagtatatatggtacaatctttattagttccttgtttggttttgagacgtgaagtaggagaactagttgagttgacatattttaattttggaaccttcagttaagctgtttttaatctattttgaattgacagATGAAATTGATCTACTTAATGTAAGTTTTGATGGGCAGTTAGCTCCTGATAGAAAATCTGCCAAGGCAGGGTTGAACGAACTAAGAAGAGTTGCACCTTC
Basic information
species | Glycine max |
transcript | GLYMA20G03040.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G03040.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G03667.1 (Arabidopsis thaliana), 3'ss of exon 7
gtgagtgatttcaaattaacttaatttacctgctcctatgctgagtatatatggtacaatctttattagttccttgtttggttttgagacgtgaagtaggagaactagttgagttgacatattttaattttggaaccttcagttaagctgtttttaatctattttgaattgacagATGAAATTGATCTACTTAATGTAAGTTTTGATGGGCAGTTAGCTCCTGATAGAAAATCTGCCAAGGCAGGGTTGAACGAACTAAGAAGAGTTGCACCTTC
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---------------------------------------------------------------------------------------gtaaccattcccccacactgtttctgtct-cggccaacaattctgaaact---aatcaaaagaagtaatatctatttc---tt--cagATGAAGTTGATCTCCTTAATGTCAGTTTTGATGGTCCTAATGCTCCTGATAGGATCTCCGCCAAGGCTGGAATAAAGGAACTCAAAAAGATTGCACCTTT
upper sequence: GLYMA20G03040.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0011g00390.t01 (Vitis vinifera), 3'ss of exon 7
gtgagtgatttcaaattaacttaatttacctgctcctatgctgagtatatatggtacaatctttattagttccttgtttggttttgagacgtgaagtaggagaactagttgagttgacatattttaattttggaaccttcagttaagctgttt--ttaatctattttgaattgacagATGAAATTGATCTACTTAATGTAAGTTTTGATGGGCAGTTAGCTCCTGATAGAAAATCTGCCAAGGCAGGGTTGAACGAACTAAGAAGAGTTGCACCTTC
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-------------------------------------------------------------------------tcatcc--ttgtggaacgttctctcccataagatcttatgtct-tatatatcgtgtgtgaaagtatt-gtagagctggttgtttaataaagtatctgttggcagATGGAATTGATCTACTTAATGTAAGCTTTGATGGTCAGTCTGCTCCTGATAGAATCTCTGCTAAAGCTGGACTAAAAGAACTACAAAGAATCTCACCGTTMapped 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|23064094|gb|BU578867.1|BU578867EST: GGACTCTATGATACTTGCAGCATTATTGGATAAATGCATGGATCCCAGCT ATGAAATTGATCTACTTAATGTAAGTTTTGATGGGCAGTTAGCTCCTGATA
genomic: GGACTCTATGATACTTGCAGCATTATTGGATAAATGCATGGATCCCAGCTgtgagtgatt ... gaattgacagATGAAATTGATCTACTTAATGTAAGTTTTGATGGGCAGTTAGCTCCTGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttaattttggaaccttcagttaagctgtttttaatctattttgaattgacagATGAAATTGATCTACTTAATGTAAGTTTTGATGGGCAGTTAGCTCCTGATAGAAAATCTGCCAAGGCAGGGTTGAACGAACTAAGAAGAGTTGCACCTTC
ttttaat putative branch site (score: 3)
tgtttttaatctattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgatttcaaattaacttaatttacctgctcctatgctgagtatatatggtacaatctttattagttccttgtttggttttgagacgtgaagtaggagaactagttgagttgacatattttaattttggaaccttcagttaagctgtttttaatctattttgaattgacagATGAAATTGATCTACTTAATGTAAGTTTTGATGGGCAGTTAGCTCCTGATAGAAAATCTGCCAAGGCAGGGTTGAACGAACTAAGAAGAGTTGCACCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG