Sequence
atgc intronic sequence ATGC exonic sequence...aggacttgtaaagaaaagttgttgtttgttgcttttctatttctcctcctctatatttttatttatttattatgtgtattttttttgctttactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCGCTGGAGACATCTT
Basic information
species | Glycine max |
transcript | GLYMA17G05000.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G05000.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os08g34950.1 (Oryza sativa), 3'ss of exon 4
aggacttgtaaagaaaagttgttgtttgttgcttttctatttctcctcctcta-tatttttattta--tttattatgtgtattttttttgctttactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCGCTGGAGACATCTT
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--cgcttcacgatcaacgttaatacttactctagtactttacgaaagaattgaataataaaattgaagtcaatttcatgtgctaactattcctaa-tctgtagATATTGCTCAAAGGAGCTAATGGCGATGAGCTGAAAAAAGTGAAGCATGTTGTGCAATATGGAGTCTTTGCAGCCTATCACTTGGCTCTGGAAACATCTT
upper sequence: GLYMA17G05000.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G153722_T01 (Zea mays), 3'ss of exon 4
aggacttgtaaagaaaagttgttgtttg-ttgcttttctatttctcctcctctatatttttatttatttattat-gtgtattttttttgctttact-ttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCGCTGGAGACATCTT
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---gtttgttccttgaatgctttattaggccactttggcatcatctcatgtaaataaatgatctgcattatggtcatatatctaacttcctctgatgctgtagATCTTGCTTAAAGGTGCTAATGGTGATGAGCTAAAAAAGGTGAAGCATGTTTTGCAATATGGAGTATTTGCAGCCTACCATTTGGCACTTGAAACATCAT
upper sequence: GLYMA17G05000.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G33240.1 (Arabidopsis thaliana), 3'ss of exon 5
--------------------aggacttgtaaagaa--aagttgttg-tttgttgcttttctatttctcctcctctatatttttatttatttattatgtgtattttttttgctttactttga--agATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCGCTGGAGACATCTT
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gtaagttccacaacattttaaggtgttttaagacattagatccttgacctgttattatgactatgcatattgtatgtctgatcaggaaataatcttaagtatggtgcttgatctgtctttctcagATATTGCTCAAGGGGGCACATGAAGATGAGCTAAAGAAGGTGAAACATGTGATTCAGTATGGAGTTTTTGCAGCATATCACTTGGCTCTTGAGACATCCT
upper sequence: GLYMA17G05000.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv11s0016g00360.t01 (Vitis vinifera), 3'ss of exon 4
---aggacttgtaaagaaaagttgttgtttgttgcttttctatttctcctcctctatatttttatttatttattatgtgtatttt-ttttgctttactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCGCTGGAGACATCTT
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tcttcaggttattctggaatgc--ctgcatgtgatcctacatttttgacactttaacttttagaaagaattgatgctcatctattgcttttctttgtttc--agATTTTGCTCAAGGGTGCTAATGGGGATGAGTTGAAGAAAGTGAAACATGTGATCCAGTATGGAGTTTTCGCAGCTTACCACTTAGCTCTTGAGACATCTTMapped 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|207763224|gb|GD737865.1|GD737865EST: CAAAGACTTTGATGTTCTTTGAGGGTTGCCCGAAACCTTTAGGTTGCACT ATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTG
genomic: CAAAGACTTTGATGTTCTTTGAGGGTTGCCCAAAACCTTTAGGTTGCACTgtaagttcaa ... tactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcctctatatttttatttatttattatgtgtattttttttgctttactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCGCTGGAGACATCTT
ttttttttgctttact CT-rich tract
tatatttttatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aggacttgtaaagaaaagttgttgtttgttgcttttctatttctcctcctctatatttttatttatttattatgtgtattttttttgctttactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCGCTGGAGACATCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - aagaaaa
- - - - - - - - -gttgttg
- - - - - - - - - - - - - tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgtgt