Sequence
atgc intronic sequence ATGC exonic sequenceTGATGTCTATAGTTTCGGTGTTGTCTTCCTTGAACTCATTACTGGGCGCAAGGCTATTGATAATACGCGTGCACATGGAGAGCATAATCTTGTTGCATGGgtaagtatctctctcttgatcatccttgtgttttgtcatgtttcaataaacttctccataaacacttagaagaaaatacgaaagacaaatgaaaaaaaaa...
Basic information
species | Glycine max |
transcript | GLYMA13G28730.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G28730.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g30870.1 (Oryza sativa), 5'ss of exon 4
TGATGTCTATAGTTTCGGTGTTGTCTTCCTTGAACTCATTACTGGGCGCAAGGCTATTGATAATACGCGTGCACATGGAGAGCATAATCTTGTTGCATGGgtaagt--atctctctcttgatcatccttgtgtttt-----gtcatgtttcaataaacttctccataaacacttagaagaaaatacgaaagacaaatgaaaaaaaaa
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TGATGTGTATAGTTTTGGTGTTGTGTTCCTTGAACTGATTACTGGCCGCAAAGCAATCGACAACACCAAACCACTTGGAGAGCAGAACCTAGTGGCATGGgtatgttcatctattgtctaaattttgtcataagcttgatggttgcctatcgatatatcgtagcaaattcatttattttacaatttcttggatgaagcat-------
upper sequence: GLYMA13G28730.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g71000.1 (Oryza sativa), 5'ss of exon 4
TGATGTCTATAGTTTCGGTGTTGTCTTCCTTGAACTCATTACTGGGCGCAAGGCTATTGATAATACGCGTGCACATGGAGAGCATAATCTTGTTGCATGGgtaagtatctctct----cttg-atcatccttgtgttttgt-catgtttcaataaacttctccataaacacttag---aagaaaatacgaaagacaaatgaaaaaaaaa
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CGATGTCTATAGCTTTGGTGTTGTTTTCCTCGAACTGATTACAGGGCGCAAAGCAATTGACAACACAAAGCCACAGGGGGAGCAAAACCTAGTGGCATGGgtatgtttttatactatacttgcatcataaatgcataataaatatatgccagtgacacccattgtatgcattcttcttttgaaaataaaagcattacatg---------
upper sequence: GLYMA13G28730.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G140590_T06 (Zea mays), 5'ss of exon 3
TGATGTCTATAGTTTCGGTGTTGTCTTCCTTGAACTCATTACTGGGCGCAAGGCTATTGATAATACGCGTGCACATGGAGAGCATAATCTTGTTGCATGGgtaagtatctctctcttgatcatccttgtgttttgtcatgtttcaataaacttctccataaacacttagaagaaaatacgaaag--acaaatgaaaaaaaaa
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TGATGTATATAGTTTTGGTGTTGTGTTCCTTGAACTGATTACTGGCCGCAAAGCAATTGACAACACAAAACCCCATGGAGAGCAAAACCTAGTTGCATGGgtatgtttgttttgtctacttaattttcttcataaaaataatc--atttgccttcagtttatcaatgaaaaggtcacacagcctttgcatttcttgagataa
upper sequence: GLYMA13G28730.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv05s0020g01770.t01 (Vitis vinifera), 5'ss of exon 4
TGATGTCTATAGTTTCGGTGTTGTCTTCCTTGAACTCATTACTGGGCGCAAGGCTATTGATAATACGCGTGCACATGGAGAGCATAATCTTGTTGCATGGgtaagtatctctctcttgatcatccttgtgttttgtcatgtttcaataaacttctccat---aaacacttagaagaaaatacgaaagacaaatgaaaaaaaaa---------------------------------------------------------
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TGATGTTTATAGTTTTGGTGTCGTTTTCCTTGAACTTATCACAGGGCGTAAAGCTATTGATAACAATCGGGCTGCTGGTGAGCATAACCTTGTTGCATGGgtaagtgtttcttttctg--cattttcccaatttattggcttttattgtactttttctttttaacaatttccatgaaggtgatgcttgcatatactcaatttattattatacaagatttctcttctttttccctttattttgtgggatatgaatctgtag
upper sequence: GLYMA13G28730.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ23436 (Selaginella moellendorffii), 5'ss of exon 4
TGATGTCTATAGTTTCGGTGTTGTCTTCCTTGAACTCATTACTGGGCGCAAGGCTATTGATAATACGCGTGCACATGGAGAGCATAATCTTGTTGCATGGgtaagtatctctctcttgatcatccttgtgttttgtcatgtttcaataaacttctccataaacacttagaagaaaatacgaaagacaaatgaaaaaaaaa
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GGACGTGTACAGTTTCGGAGTCGTTCTTTTGGAGCTCATCACTGGACGGAAAGCTATCGACAATGCTAGGCCGGCCGGAGAGCACAATCTTGTTGCATGGgtaagt-------ttttgtactcctttttatttt-ccttctttcatacacgtactttacgcgcag-----------------------------------
upper sequence: GLYMA13G28730.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ25419 (Selaginella moellendorffii), 5'ss of exon 4
TGATGTCTATAGTTTCGGTGTTGTCTTCCTTGAACTCATTACTGGGCGCAAGGCTATTGATAATACGCGTGCACATGGAGAGCATAATCTTGTTGCATGGgtaagtatctctctcttgatcatccttgtgttttgtcatgtttcaataaacttctccataaacacttagaagaaaatacgaaagacaaatgaaaaaaaaa
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GGACGTGTACAGTTTCGGAGTCGTTCTTTTGGAGCTCATCACTGGACGGAAAGCTATCGACAATGCTAGGCCGGCCGGAGAGCACAATCTTGTTGCATGGgtaagt-------ttttgtactcctttttgtttt-ccttctttcatacacgtactttacgcgcag-----------------------------------Mapped 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|208203772|gb|GE003147.1|GE003147EST: AATCTTGTTGCATGG GCACGGCCGCTTTTTCAAAGTACCGTAGGTAAGTTCCCCAAAATGGCTGAC
genomic: AATCTTGTTGCATGGgtaagtatct ... aactttgtagGCACGGCCGC-TTTTCAAAG-ACCGTAGG-AAGTTCCCCAAAATGGCTGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATGTCTATAGTTTCGGTGTTGTCTTCCTTGAACTCATTACTGGGCGCAAGGCTATTGATAATACGCGTGCACATGGAGAGCATAATCTTGTTGCATGGgtaagtatctctctcttgatcatccttgtgttttgtcatgtttcaataaacttctccataaacacttagaagaaaatacgaaagacaaatgaaaaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaaaa