Sequence
atgc intronic sequence ATGC exonic sequencegtaagcagctcaattgtcaacctatgacactttctgtgccttctttgttttttcattcaaatttacttagcatccttctcattattccttcactttttaagGTACAAATGGATAACATATGGAGAAGCAGGTACGGCCCGGTCAGCAATAGGTTCTGGTTTGATTTATCATGGAATCGAAAAG
Basic information
species | Glycine max |
transcript | GLYMA10G39540.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G39540.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os12g04990.1 (Oryza sativa), 3'ss of exon 4
gtaagcagctcaattgtcaacctatgacactttctgtgccttctttgttttttcattcaaatttacttagcatccttctcattattccttcactttttaagGTACAAATGGATAACATATGGAGAAGCAGGTACGGCCCGGTCAGCAATAGGTTCTGGTTTGATTTATCATGGAATCGAAAAG
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gtaag-aattggttcctggatatatatgtcattat-tgcctt--ttgtagctttgttaaaatcttttaaatga---------tatatatgaattgttgcagCTACAAATGGATGACATATGGAGAAGCTAGTACAAGCCGGACTGCGATAGGTTCTGGTCTTATTTACCATGGAATACCTGAA
upper sequence: GLYMA10G39540.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os12g04990.3 (Oryza sativa), 3'ss of exon 3
gtaagcagctcaattgtcaacctatgacactttctgtgcct-tctttgttttttcattcaaatttacttagcatccttctcat--tattccttcactttttaagGTACAAATGGATAACATATGGAGAAGCAGGTACGGCCCGGTCAGCAATAGGTTCTGGTTTGATTTATCATGGAATCGAAAAG
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---aacagttggggagtaagaattggttcctggatatatatgtcattattgccttttgtagctttg-ttaaaatcttttaaatgatatatatgaattgttgcagCTACAAATGGATGACATATGGAGAAGCTAGTACAAGCCGGACTGCGATAGGTTCTGGTCTTATTTACCATGGAATACCTGAA
upper sequence: GLYMA10G39540.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0020g03080.t01 (Vitis vinifera), 3'ss of exon 4
gtaagcagctcaattgtcaacctatgacactttctgtgccttctttgttttttcattcaaatttacttagcatccttctcatt-attccttcactttttaagGTACAAATGGATAACATATGGAGAAGCAGGTACGGCCCGGTCAGCAATAGGTTCTGGTTTGATTTATCATGGAATCGAAAAG
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---------------gtaagttgctca---tctgaataactttgctatttcatcattgaagttcccttat--tcatttgcattcattgcctacactttcaagGTACAAATGGATGACATATGGAGAAGCAGGTACTGCTCGATCAGCAATTGGTTCTGGTTTAATATACTATGGAATACCGAAAMapped 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|213605762|gb|DB968594.1|DB968594EST: GACTACAAATATCTGGGAACACGTGTCCGTGTTGATGGAACTGTTGGGGA GTACAAATGGATAACATATGGAGAAGCAGGTACGGCCCGGTCAGCAATAGG
genomic: GACTACAAATATCTGGGAACACGTGTCCGTGTTGATGGAACTGTTGGGGAgtaagcagct ... actttttaagGTACAAATGGATAACATATGGAGAAGCAGGTACGGCCCGGTCAGCAATAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttttcattcaaatttacttagcatccttctcattattccttcactttttaagGTACAAATGGATAACATATGGAGAAGCAGGTACGGCCCGGTCAGCAATAGGTTCTGGTTTGATTTATCATGGAATCGAAAAG
catccttctcattatt CT-rich tract
attcaaatttactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcagctcaattgtcaacctatgacactttctgtgccttctttgttttttcattcaaatttacttagcatccttctcattattccttcactttttaagGTACAAATGGATAACATATGGAGAAGCAGGTACGGCCCGGTCAGCAATAGGTTCTGGTTTGATTTATCATGGAATCGAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA