Sequence
atgc intronic sequence ATGC exonic sequenceATACAAATGCATGTTGAGAGGTGCTGCTGATTATCTTGTTAAGCCTATTAGAAAAAATGAACTGAGGAACTTGTGGCAACATGTTTGGAGAAGACAATCAgtaggacttccatccattcatttttcagttattttttcttttttctacttaaatactcagttattaatatattgttgacaactgattgaattttaatttattatttattttctgtcag
Basic information
species | Glycine max |
transcript | GLYMA04G40640.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G40640.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os09g36220.2 (Oryza sativa), 5'ss of exon 3
ATACAAATGCATGTTGAGAGGTGCTGCTGATTATCTTGTTAAGCCTATTAGAAAAAATGAACTGAGGAACTTGTGGCAACATGTTTGGAGAAGACAATCAgtaggacttccatccattcatttttcag-----ttattttttcttttttctacttaaatactcagttattaatatattgttgacaactgattgaattttaatttattatttattttctgtcag--
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TTTCAAATGCATGCTAAAGGGTGCTGCAGATTTCCTTGTTAAGCCAATACGGAAGAATGAATTAAGGAACTTATGGCAGCATGTTTGGAGAAAACAACTGgtaagatcacatatttgcaacgttttagcatgactacatttgctttctcgtttttatatattaaaatttggattctgcatttttcacaaaactaatcaacaaacttcaattactctgttttacag
upper sequence: GLYMA04G40640.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G179024_T01 (Zea mays), 5'ss of exon 3
ATACAAATGCATGTTGAGAGGTGCTGCTGATTATCTTGTTAAGCCTATTAGAAAAAATGAACTGAGGAACTTGTGGCAACATGTTTGGAGAAGACAATCAgtaggacttccatccattcatttttcagttattttttcttttttctacttaaatactcagttattaatatattgttgacaactg-attgaattttaatttattatttattttctgtcag-----------
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TTTCAAATGCATGCTAAAGGGTGCAGCAGATTTCCTTGTTAAACCGATAAGAAAGAATGAATTAAGGAACTTGTGGCAGCACGTTTGGAGAAAACAACTGgtaaga-tggcatatttgtatcttttaggcatgaatgcatttctttttatgctttatccatttttacttcgat-ttggtacctgtgatgagacatgagttcttgctcaatttatcttaccttacctgcag
upper sequence: GLYMA04G40640.2 (Glycine max), 5'ss of exon 3
lower sequence: AT5G24470.1 (Arabidopsis thaliana), 5'ss of exon 3
ATACAAATGCATGTTGAGAGGTGCTGCTGATTATCTTGTTAAGCCTATTAGAAAAAATGAACTGAGGAACTTGTGGCAACATGTTTGGAGAAGACAATCAgtaggacttccatccattcatt--tttcagttattttt---------tcttttttctacttaaatactcagttatt----------aatatattgttgac------aactgattgaatttt--aatttattatttatttt--ctgtcag------
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GTATAAGTGTATGTTGAAAGGTGCGGCTGATTATCTTGTTAAGCCGTTGAGGAGGAATGAGCTTAGAAATCTTTGGCAGCATGTCTGGAGAAGACAAACTgtatgtttcatatccatcttttgttttaagctttatgtgtgatgaattatctctacaacttaaacccgttcttatataagttctgggaaatttcgttgtcttgaaaagatgattgagttctcagatttgtttttggttttgattatcttttacag
upper sequence: GLYMA04G40640.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv16s0098g00900.t01 (Vitis vinifera), 5'ss of exon 3
ATACAAATGCATGTTGAGAGGTGCTGCTGATTATCTTGTTAAGCCTATTAGAAAAAATGAACTGAGGAACTTGTGGCAACATGTTTGGAGAAGACAATCAgtaggacttccatccattcatttttcagttattttttcttttttctacttaaatactcagttattaatatattgttgacaactgattgaattttaatttattatttattttctgtcag
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TTATAAATGCATGTTGAGAGGTGCAGCTGACTTTCTTGTTAAGCCTGTTAGAAGAAATGAGCTGAAGAATTTGTGGCAACATGTCTGGAGAAGACAATCGgtatg--cttaatccttaaacttgtcagaaatattatatgcttcct-tttggtttcttaataacttata--------acaa--------atcttgatttactatat-tgtactatcagMapped 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|254336105|gb|GR841430.1|GR841430EST: GAAAAAATGAACTGAGGAACTTGTGGCAACATGTTTGGAGAAGACAATCA TCAACCACTGGTATTAATGGCCTCCAAGATGAGAGTGTTGCACAACAGAAG
genomic: GAAAAAATGAACTGAGGAACTTGTGGCAACATGTTTGGAGAAGACAATCAgtaggacttc ... tttctgtcagTCAACCACTGGTATTAATGGCCTCCAAGATGAGAGTGTTGCACAACAGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATACAAATGCATGTTGAGAGGTGCTGCTGATTATCTTGTTAAGCCTATTAGAAAAAATGAACTGAGGAACTTGTGGCAACATGTTTGGAGAAGACAATCAgtaggacttccatccattcatttttcagttattttttcttttttctacttaaatactcagttattaatatattgttgacaactgattgaattttaatttattatttattttctgtcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA