Sequence
atgc intronic sequence ATGC exonic sequenceTGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGAATAGTTAGCAAACTACTTGTACTTCTTCAGgtatatttaatagagtattattctcaagaataatgttattatggtcattttgctgaattatcatatgattgaattattctttcacctaattttggatattctatacattttttag
Basic information
species | Glycine max |
transcript | GLYMA08G12120.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g49420.2 (Oryza sativa), 5'ss of exon 2
TGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGAATAGTTAGCAAACTACTTGTACTTCTTCAGgtatatttaatagagtattattctcaagaataatgttattatggtcattttgctgaattatcatatgattgaattattctttcacctaattttggatattctatacattttttag
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CGCAGCTTCTGCGATTCTAAACTTCAGCGAAAACTGCAGGCCTGATATTTTGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAGgta----------atccttgcatttgatcatggagccttcatt----ttgtgcagcataaacatgaaccttttcggaaattttgtttgttttctgatag----------------
upper sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os07g38760.1 (Oryza sativa), 5'ss of exon 3
TGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGAATAGTTAGCAAACTACTTGTACTTCTTCAGgtatatttaatagagtattattctcaagaataatgt-tattatggtcattttgctgaattatcatatgattgaattattctttcacctaattttggatattctatacattttttag
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TGCTGCATCAGCTATCTTGAATTTCAGTGAGAATTGCACGCCTGAAATTCTGACACCTTACCTGGATGGAATTGTTACCAAATTACTTGTTCTTCTTCAGgtatcc--------acctccctcaccagttaaatatattttattgtcttttag------tgttatttttttgaactagtagaacatgtgctaat--atattgtacttatgctttag
upper sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G033619_T01 (Zea mays), 5'ss of exon 2
TGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGAATAGTTAGCAAACTACTTGTACTTCTTCAGgtatatttaatagagtattattct-caagaataatgttattatggtcattttgctgaattatcatatgattgaattattctttcacctaattttggatattctatacattttttag
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TGCTGCATCAGCTATTCTGAACTTCAGTGAAAACTGCAGACCTGATATTTTGACACCATACTTGGATGTAATAGTTGGGAAACTTCTATTGTTACTCCAGgtggatctcacatctagtctttaaaccttaactttaacagtatagacattagacataagcataatgt--ttattctgttattttaaacttgtatgcttatgatgtag---------
upper sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv06s0004g00500.t01 (Vitis vinifera), 5'ss of exon 3
TGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGAATAGTTAGCAAACTACTTGTACTTCTTCAGgtatatttaatagagtattat-----tctcaagaataatgttattatggtcattttgctgaattatcatatgattgaattattctttcacctaattttggatattctatacattttttag
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TGCTGCTTCAGCTGTGCTCAACTTCAGTGAGAACTGCACTCCAGATATTTTAACGCCATATTTAGATGGAATTGTTGGCAAATTACTAGTACTTCTACAGgtatgacaagagaagaatcaccaccatttccacaatacaaacattcaagtagatgcagtaatgtaaaccctgtggataacatctttatccttaatttt--atattatgt-tgttatccagMapped 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|20812511|gb|BQ296989.1|BQ296989EST: TAACGCCATACTTGGATGGGATAGTTAGCAAACTACTTGTACTTCTTCAG AATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTT
genomic: TAACGCCATACTTGGATGGAATAGTTAGCAAACTACTTGTACTTCTTCAGgtatatttaa ... cattttttagAATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGAATAGTTAGCAAACTACTTGTACTTCTTCAGgtatatttaatagagtattattctcaagaataatgttattatggtcattttgctgaattatcatatgattgaattattctttcacctaattttggatattctatacattttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA