Sequence
atgc intronic sequence ATGC exonic sequenceGTGAACCCACACACTCATCAGCTGAAACTATGTGATTTTGGGAGTGCAAAAGTGTTGgtaagatattgatctaagtgctctgttggttaatggaagctactgttttttgtcctcaagtttcatccatgtgcttctaattcatcag
Basic information
species | Glycine max |
transcript | GLYMA16G00400.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G00400.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os03g62500.1 (Oryza sativa), 5'ss of exon 7
GTGAACCCACACACTCATCAGCTGAAACTATGTGATTTTGGGAGTGCAAAAGTGTTGgtaagatattgatctaagtgctctgttggttaatggaagctactgttttttg--------tcctcaagtttcatccatgtgcttctaa--ttcatcag------------------------------------------------------
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GTTAACCCACATACACACCAGCTCAAAATATGTGATTTTGGCAGTGCAAAAGTTTTGgtaagttctgaatttggcagaaatttaaattcacaagcatttctgttttctgaatggacacactgggttttcttgcaaggaaatgtgaacttaggcaggtagcctacacatgatagtcttaaattgcagctttttccccgccgaatgtgcag
upper sequence: GLYMA16G00400.1 (Glycine max), 5'ss of exon 6
lower sequence: AT1G09840.1 (Arabidopsis thaliana), 5'ss of exon 7
GTGAACCCACACACTCATCAGCTGAAACTATGTGATTTTGGGAGTGCAAAAGTGTTGgtaagat--attgatctaagtgctctgttggttaatggaagctactgttttttgtcctcaagtttcatccatgtgcttctaattcatcag
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GTGAACCCACACACGCATCAGCTAAAAATATGTGATTTCGGGAGTGCAAAAGTGTTGgtaagttttattgacacagct-tttaacgaattcattcttgg-agtatgacatgttctcgttctctgtag--------------------
upper sequence: GLYMA16G00400.1 (Glycine max), 5'ss of exon 6
lower sequence: AT1G57870.3 (Arabidopsis thaliana), 5'ss of exon 8
GTGAACCCACACACTCATCAGCTGAAACTATGTGATTTTGGGAGTGCAAAAGTGTTGgtaagatattgatctaagtgctctgttggttaatggaagctactgttttttgtcctcaagtttcatccatg-tgcttctaattcatcag
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GTGAATCCACACACACATCAGCTGAAAATTTGTGATTTTGGGAGTGCAAAAGTGTTGgtaaagt------ttatcagctatagctcttagtggt--ttagttttcctagtcc--atgcttagattatgacgtgtcatggtccacag
upper sequence: GLYMA16G00400.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 5'ss of exon 6
GTGAACCCACACACTCATCAGCTGAAACTATGTGATTTTGGGAGTGCAAAAGTGTTGgtaagatattgatctaagtgctctgttggttaatgg-------aagctactgttttttgtcctcaagtttcatccatgtgcttctaattcatcag
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GTGAACCCACACACGCATCAGCTGAAACTTTGTGATTTTGGGAGTGCGAAAGTTTTGgtaa-attttcatcca---gcactggttattaatggtgtcatgaagtcatcttgtttcattgcttgatgttggtcagct--ttccgttttatcag
upper sequence: GLYMA16G00400.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S306_62V6.1 (Physcomitrella patens), 5'ss of exon 5
GTGAACCCACACACTCATCAGCTGAAACTATGTGATTTTGGGAGTGCAAAAGTGTTGgtaagatattgatctaagtgctctgt-tggttaatggaagctactgttttttgtcctcaagtttcatccatgtgcttctaattcatcag-------------
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GTGAATCCTCATACGCACCAGCTGAAACTGTGTGATTTTGGAAGTGCGAAAGTGCTGgtgag-tatctactggattagtgagtattttcgagttgcgcagtcgcattacagcgtcgaagca-atttgtgtttcggaaatgcgtgcgttgcggtgacaggMapped 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|26047783|gb|CA784461.1|CA784461EST: CACACACTCATCAGCTGAAACTATGTGATTTTGGGAGTGCAAAAGTGTTG GTGAAAGGAGAACCTAATGTTTCTTACATCTGTTCAAGATACTACCGTGCT
genomic: CACACACTCATCAGCTGAAACTATGTGATTTTGGGAGTGCAAAAGTGTTGgtaagatatt ... aattcatcagGTGAAAGGAGAACCTAATGTTTCTTACATCTGTTCAAGATACTACCGTGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGAACCCACACACTCATCAGCTGAAACTATGTGATTTTGGGAGTGCAAAAGTGTTGgtaagatattgatctaagtgctctgttggttaatggaagctactgttttttgtcctcaagtttcatccatgtgcttctaattcatcag
- - - - - - - - TCAGCT
- - - - - - - - - CAGCTG
- - - - - - - - - AGCTGA