Sequence
atgc intronic sequence ATGC exonic sequenceTTGGGAAGAGAGCATTGTTTTGTCCCCCAAGAATTCACGTTTCGTCTTCCTCTCTGCCACTGTCCCCAATGCCAAAGAGTTTGCTGATTGGGTGGCGAAGgtcatttgctctttatttattacctttatttattacattagctgctgctctaacactttagtagcttacttgcag
Basic information
species | Glycine max |
transcript | GLYMA08G47700.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G47700.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os12g18140.1 (Oryza sativa), 5'ss of exon 3
TTGGGAAGAGAGCATTGTTTTGTCCCCCAAGAATTCACGTTTCGTCTTCCTCTCTGCCACTGTCCCCAATGCCAAAGAGTTTGCTGATTGGGTGGCGAAGgtcatttgctctttatttattacctttatttattacattagctgctgctctaacactttagtagcttacttgcag-
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GTGGGAGGAAAGTATAGTGATGGCTCCTAAGAACTCACGTTTTGTGTTCCTCTCAGCTACCGTGCCTAATGCCAAGGAGTTTGCTGACTGGGTGGCTAAGgtttgttgccacgcttccctagaacacatttgatcaagcatttatcagcatttgatctatcttctttgaccataag
upper sequence: GLYMA08G47700.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G040995_T01 (Zea mays), 5'ss of exon 3
TTGGGAAGAGAGCATTGTTTTGTCCCCCAAGAATTCACGTTTCGTCTTCCTCTCTGCCACTGTCCCCAATGCCAAAGAGTTTGCTGATTGGGTGGCGAAGgtcatttgc------tctttatttattacctt-tatttattacattagctgctgctctaacactttagtagcttacttgcag-----------------------------------------------------------
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------------TATAGTGATGGCTCCCAAGAATTCACGCTTTGTCTTCCTCTCGGCAACTGTACCTAATGCCAAGGAGTTCGCTGATTGGGTAGCTAAGGTCTGTTCCCAAgtgtgcctatttgtctccatgtttctgttgccatgattttggatttga-actcatgta-tttgttaaaaggcgtctatagacatggtcaagcattcacacatgctttaagaacatatgctatttttcag
upper sequence: GLYMA08G47700.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G040995_T02 (Zea mays), 5'ss of exon 3
TTGGGAAGAGAGCATTGTTTTGTCCCCCAAGAATTCACGTTTCGTCTTCCTCTCTGCCACTGTCCCCAATGCCAAAGAGTTTGCTGATTGGGTGGCGAAGgtcatttgc------tctttatttattacctt-tatttattacattagctgctgctctaacactttagtagcttacttgcag-----------------------------------------------------------
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TTGGGAGGAGAGTATAGTGATGGCTCCCAAGAATTCACGCTTTGTCTTCCTCTCGGCAACTGTACCTAATGCCAAGGAGTTCGCTGATTGGGTAGCTAAGgtctgttcccaagtgtgcctatttgtctccatgtttctgttgccatgattttggatttga-actcatgta-tttgttaaaaggcgtctatagacatggtcaagcattcacacatgctttaagaacatatgctatttttcag
upper sequence: GLYMA08G47700.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G59760.1 (Arabidopsis thaliana), 5'ss of exon 3
TTGGGAAGAGAGCATTGTTTTGTCCCCCAAGAATTCACGTTTCGTCTTCCTCTCTGCCACTGTCCCCAATGCCAAAGAGTTTGCTGATTGGGTGGCGAAGgtcatttgctctt--tatttatt--acctttatttattacattagctgctgc-----tctaacactttagtagcttacttgcag----------------
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TTGGGAAGAGAGTATTGTAATGGCTCCGAAGAATTCTCGTTTTGTGTTTCTATCGGCAACAGTTCCCAATGCCAAGGAGTTTGCTGATTGGGTTGCAAAGgtatttcactcttgctactccttctacctctcttttgtgaatggattgatacatttttgtatcaacttgtaattatgatttcacatcaattatttatttt
upper sequence: GLYMA08G47700.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S69_14V6.1 (Physcomitrella patens), 5'ss of exon 3
TTGGGAAGAGAGCATTGTTTTGTCCCCCAAGAATTCACGTTTCGTCTTCCTCTCTGCCACTGTCCCCAATGCCAAAGAGTTTGCTGATTGGGTGGCGAAGgt------catttgctctttatttat---tacctttatttattacattagctgctgctctaacactttagtagcttacttgcag----------------
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GTGGGAAGAGAGCATTGCAATGGCACCCAAGAATGCGCGCTTTGTGTTCCTATCTGCTACTGTACCAAATGCTAAGGAGTTCGCAGATTGGGTAGCGAAGgtgggattcatctgatgtctgtttctacctatttttctccaaaaaacgatgtgatggatatgtcttgtatttgttttccgagatatcacttagagatttcMapped 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|7686429|gb|AW757077.1|AW757077EST: TCTCTGCCACTGTCCCCAATGCCAAAGAGTTTGCTGATTGGGTGGCGAAG GTGCACCAACAGCCTTGTCATGTCGTTTATACAGATTACCGACCAACTCCC
genomic: TCTCTGCCACTGTCCCCAATGCCAAAGAGTTTGCTGATTGGGTGGCGAAGgtcatttgct ... ttacttgcagGTGCACCAACAGCCTTGTCATGTCGTTTATACAGATTACCGACCAACTCCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGGGAAGAGAGCATTGTTTTGTCCCCCAAGAATTCACGTTTCGTCTTCCTCTCTGCCACTGTCCCCAATGCCAAAGAGTTTGCTGATTGGGTGGCGAAGgtcatttgctctttatttattacctttatttattacattagctgctgctctaacactttagtagcttacttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT