Sequence
atgc intronic sequence ATGC exonic sequenceCTACCGCATTCCCGAATTACCAAAATACACTTCACCTGTCACGGACTTGATAAGAGAAATGCTCCAAGCTAGACCAGATGACAGACCAGATATCACGCAGgcaagcgctttgcttgattgaccattcatctccatcagtttaggttggtcatagatcatccattgatagcattcataggtacgtactagaattagggcaattaattactgactttggatgtacttccatggtggcag
Basic information
species | Glycine max |
transcript | GLYMA15G42460.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G42460.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g37880.3 (Oryza sativa), 5'ss of exon 5
CTACCGCATTCCCGAATTACCAAAATACACTTCACCTGTCACGGACTTGATAAGAGAAATGCTCCAAGCTAGACCAGATGACAGACCAGATATCACGCAGgcaagcgctttgcttgattgaccattcatctccatcagtttaggttggtcatagatcatccattgatagcattcataggtacgtactagaattagggcaattaattactgactttggatgtacttccatggtggcag
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TTATCGTATTCCAGAGCAACCCAAGTATAGTGCCGCTGTCACAAAGTTGATCAAAGATATGCTGGAAGCCTCTCCAAATGACAGACCTGATGTCACGCAGgcaagagctttgattgattggccattcatctccatgatactaggttagtcatagactgttgcatg-tagccttaggaaccacataagcatatttttctaaat-----ctgatgttagactttgtacatt--tgacag
upper sequence: GLYMA15G42460.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os09g10720.1 (Oryza sativa), 5'ss of exon 4
CTACCGCATTCCCGAATTACCAAAATACACTTCACCTGTCACGGACTTGATAAGAGAAATGCTCCAAGCTAGACCAGATGACAGACCAGATATCACGCAGgcaagcgctttgcttgattgaccattcatctccatcagtttaggttggtcatagatcatccattgatagcattcataggtacgtactagaattagggcaattaattactgactttggatgtacttccatggtggcag
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CTATCGTATCCCAGAGTTACCAAAGTACAGTTCCCCCATTACAAGTCTGATCAAAGACATGCTTCAATCTTCTCCAGATGTCAGACCAGACATTACACAGgcaagggctttgcttgattggccattcacttccatgaatttaggttagtcttaattagttcat-----gc-tccgtaaaagtgaaatgtaa--aaggtcttctgtttctctaattgtattt-catttaccattgtag
upper sequence: GLYMA15G42460.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G416684_T01 (Zea mays), 5'ss of exon 3
-----------------------------------------------------------------------CTACCGCATTCCCGAATTACCAAAATACACTTCACCTGTCACGGACTTGATAAGAGAAATGCTCCAAGCTAGACCAGATGACAGACCAGATATCACGCAGgcaagcgctttgcttgattgaccattcatctccatcagtttaggttggtcatagatcatccattgatagcattcataggtacgtactagaattagggcaattaattactgactttggatgtacttccatggtggcag
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CTCTTGTATAGAATTTGCTACTTCAAATCAGCATTTGATGGAGAATCAAAGCTCCAAATACTTAACGGGAACTATCGCATCCCAGAATTGCCGAAGTACAgttcttctattacaacacttatcaaagacatgcttaattcttctccagatgccagaccggacatcacacaggcaagggctttgcttgattggccattcacttccatgaacttaggttggtcttaattagtgcat--acaccatgaa-acgaacacataagagatcttctgtttcaatgttgatgataaatgttctgttttag------
upper sequence: GLYMA15G42460.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv13s0156g00640.t01 (Vitis vinifera), 5'ss of exon 6
CTACCGCATTCCCGAATTACCAAAATACACTTCACCTGTCACGGACTTGATAAGAGAAATGCTCCAAGCTAGACCAGATGACAGACCAGATATCACGCAGgcaagcgctttgcttgattgaccattcatctccatcagtttaggttggtcatagatcatccattgatagcat-tcataggtacgtactagaattagggcaattaattactgactttggatgtacttccatggtggcag
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CTACCGCATTCCAGAATTGCCAAAATACAGCTCGAATGTGACAGACCTAATCAGGGACATGCTGCAAGCTTCTCCAGACAATCGACCAGACATCACGCAGgcaagcgctttgcttgattggccattcatctccatgactttaggttagttttagatggt---ttgagtccatgtcaacattaggggccaggaattttctgtctgcatgctaatgctgattct--tttaatcatggcagMapped 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|7692003|gb|AW760119.1|AW760119EST: TAAGAGAAATGCTCCAAGCTAGACCAGATGACAGACCAGATATCACGCAG GTCTGGTTTCGTGTTAATGAGCAACTACCTATTAATTTACAGAAGTCGTTA
genomic: TAAGAGAAATGCTCCAAGCTAGACCAGATGACAGACCAGATATCACGCAGgcaagcgctt ... atggtggcagGTCTGGTTTCGTGTTAATGAGCAACTACCTATTAATTTACAGAAGTCGTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTACCGCATTCCCGAATTACCAAAATACACTTCACCTGTCACGGACTTGATAAGAGAAATGCTCCAAGCTAGACCAGATGACAGACCAGATATCACGCAGgcaagcgctttgcttgattgaccattcatctccatcagtttaggttggtcatagatcatccattgatagcattcataggtacgtactagaattagggcaattaattactgactttggatgtacttccatggtggcag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG