Sequence
atgc intronic sequence ATGC exonic sequenceGCAACAAAGGAATCATTTACTGATGATGGATTCTTCAAGACTGGAGATGCAGTTACTACAGATGAAGATGGATATTTCATCATTCTAGGACgtaaggaaatttatatttctcaatgtatgctgtcatatgttttcttgtaagagtcagaaccttgtgtgcagcctgtagcataattctcatgccttaatta...
Basic information
species | Glycine max |
transcript | GLYMA08G21840.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G21840.1 (Glycine max), 5'ss of exon 13
lower sequence: LOC_Os01g55590.1 (Oryza sativa), 5'ss of exon 13
GCAACAAAGGAATCATTTACTGATGATGGATTCTTCAAGACTGGAGATGCAGTTACTACAGATGAAGATGGATATTTCATCATTCTAGGACgtaagga--aatttat-atttctcaatgtatgctgtcatatgttttc-ttgtaagagtcagaaccttgtgtgcagcctgtagcataattctcatgccttaatta----------
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GTTACTGCAGAATCATTTATTGATGGTGGGTTCTTCAAGACTGGTGATACAGTAACTGTAGACGATGAAGGATATTTCATAATTTTAGGGCgtaaggaccacttcatcgttttccactagttgtgtttttttgtttaagttgtggtgctactgtctatttgtaatcgttttgggttatctgtctcatttgtattatcctgtgtag
upper sequence: GLYMA08G21840.1 (Glycine max), 5'ss of exon 13
lower sequence: AT3G16170.1 (Arabidopsis thaliana), 5'ss of exon 11
---------GCAACAAAGGAATCATTTACTGATGATGGATTCTTCAAGACTGGAGATGCAGTTACTACAGATGAAGATGGATATTTCATCATTCTAGGACgtaaggaaatttatatttctcaatgtatgctgtcatatgttttcttgtaagagtcagaaccttgtgtg-cagcctgtagcataattctcatgccttaatta-
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CTTCCAGAGGTGACTAAAGAATCATTTACGGAAGATGGATACTTCAAGACGGGAGATGCTGGAAGAGTGGATGAGGATGGATATTACGTGATTCTAGGACgtaagcaga-----acctataagtacattcaaacaca-atttaaaagtactttgtgttccttcatttaacatcttatcttatc-ttctctggtgtcgatcag
upper sequence: GLYMA08G21840.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv09s0002g04170.t01 (Vitis vinifera), 5'ss of exon 13
GCAACAAAGGAATCATTTACTGATGATGGATTCTTCAAGACTGGAGATGCAGTTACTACAGATGAAGATGGATATTTCATCATTCTAGGACgtaaggaaatttatatttctcaatgtatgctgtcatatgttttcttgtaagagtcagaaccttgtgtgcagcctgtagcataattctcatgccttaatta-----
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GTAACTAAGGAATCATTTATTGATGGCGGGTTCTTCAAGACTGGTGATGCTGTTAAAGTGGATGACGATGGATACTACATCATCTTGGGACgtaagtagacctagatc-ctatatgcatgaaccaacatggtcc----tattatttttaaatgggttattaactcgtcaccaaattttgccctctatatgtggttgMapped 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|192333243|gb|FK026124.1|FK026124EST: TGGAGATGCAGTTACTACAGATGAAGATGGATATTTCATCATTCTAGGAC GTAATAATGCTGATATAATCAAGGCTGGTGGATATAAGCTTTCTGCATTAG
genomic: TGGAGATGCAGTTACTACAGATGAAGATGGATATTTCATCATTCTAGGACgtaaggaaat ... tgtttatcagGTAATAATGCTGATATAATCAAGGCTGGTGGATATAAGCTTTCTGCATTAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAACAAAGGAATCATTTACTGATGATGGATTCTTCAAGACTGGAGATGCAGTTACTACAGATGAAGATGGATATTTCATCATTCTAGGACgtaaggaaatttatatttctcaatgtatgctgtcatatgttttcttgtaagagtcagaaccttgtgtgcagcctgtagcataattctcatgccttaatta
- - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA