Sequence
atgc intronic sequence ATGC exonic sequenceGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGCACACCTCCTCCTGAGTCCACTGCAAGGgtcagtatatcaaaatctaatttgaagttttctgaaatcaattgcgcaggcttgtgacatggtttaattggagtaattctaaatttccaatgttcctttt...
Basic information
species | Glycine max |
transcript | GLYMA08G05700.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G05700.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g50120.1 (Oryza sativa), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGCACACCTCCTCCTGAGTCCACTGCAAGGgtcagtatatcaaaatctaatttgaagtttt-ctgaaatcaattgcgcaggcttgtgacatggtttaattggagtaattctaaatttccaatgttcctttt-
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GCTTACAGGAAAGCCACTCTTTCCAGGGAAAAATGTTGTGCATCAATTGGATCTCATGACTGATCTACTTGGCACTCCTTCAGCAGAATCCCTTGCTAAGgtatattcaatccttgcaagcttgtgccttcactcaagtgcaatgtattgactcctcac-tagtctgtgtgtt-cacttctttatgcagaattcttcgcaac
upper sequence: GLYMA08G05700.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGCACACCTCCTCCTGAGTCCACTGCAAGGgtcagtatatcaaaatctaatttgaagttttctgaaatcaattgcgcaggcttgtgacatggtttaattggagtaattctaaatttccaatgttcctttt-
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GCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGGATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcactagttactaatgagac-cttaatctcactagttactaacgagtctcattttctgtattccaggcagtactctgtttcagatttttaggtac
upper sequence: GLYMA08G05700.1 (Glycine max), 5'ss of exon 5
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGCACACCTCCTCCTGAGTCCACTGCAAGGgtcagt------atatcaaaatctaatttgaagttttctgaaatcaattgcgcaggcttgtgacatggtttaattggagtaattctaaatttccaatgttcctttt----------------------------------------------------------------------
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GCTATTAGGGAAGCCGCTATTTCCTGGCAAAAATGTGGTTCACCAATTGGATATTATGACCGATTTTCTTGGCACTCCACCACCTGAAGCCATATCAAAGgtcagttatactattccagatgcttgttttagttttttcaaagtttagaactttgaattatagctctctttcttctgtggaagaagaaaaaaaagattattcactagttgaaaaactattggatcaagcaactttgagttgtattgtaaatgaatatgctatcttcaaattgtcag
upper sequence: GLYMA08G05700.1 (Glycine max), 5'ss of exon 5
lower sequence: AT3G18040.2 (Arabidopsis thaliana), 5'ss of exon 4
GCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGCACACCTCCTCCTGAGTCCACTGCAAGGgtcagtatatcaaaatctaatttgaagttttctgaaatcaat-tgcgcaggcttgtgacatggtttaattggagtaattctaaatttccaatgttcctttt
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GCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGGATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggtagagttatctatttctgtttgctaaaacttgcatgctagaatttctgtgatgtcttatgacttatgaattaaaagttttataaaccatga-
upper sequence: GLYMA08G05700.1 (Glycine max), 5'ss of exon 5
lower sequence: AT1G18150.2 (Arabidopsis thaliana), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGCACACCTCCTCCTGAGTCCACTGCAAGGgtcagtatatcaaaatctaatttgaagttttctgaaatcaattgcgcaggcttgtgacatggtttaattggagtaattctaaatttccaatgttcctttt------------------
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GCTTTTGGGTAAGCCTTTGTTTCCCGGGAAAAACGTTGTGCACCAATTGGATCTAATGACTGACTTTCTTGGTACTCCACCTCCTGAGTCAATATCAAGGgttagtcactcaaaacacttgttcatattttctgtagcaaatttaa------tgttccatacatcattgagagtaatttaatccttgtaatgagctttgcaatcttggacttctacag
upper sequence: GLYMA08G05700.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGCACACCTCCTCCTGAGTCCACTGCAAGGgtcagtatatcaaaatctaatttgaagttttctgaa-atcaattgcgcaggcttgtgacatggtttaattggagtaattctaaattt--ccaatgttcctttt
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GCTTACAGGAAAACCGCTGTTTCCGGGGAAAAATGTAGTGCACCAGTTGGATCTCATGACTGATTTGCTTGGCACTCCTTCTGCTGAATCAATCGCAAGGgttagt-tatctcattctaattctgttttttctggtcactaattg-acagactgattgtatgttccaagtggacactctctgaatttggttagctttctttt-Mapped 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|151400964|gb|EV270778.1|EV270778EST: ACCTCATGACTGATTTGCTTGGCACACCTCTTCCTGAGTCCACTGCAAGG ATTCGAAATGAAAAGGCTAAAAGGTATCTTAATAGCATGAGNNNNNNNCAA
genomic: ATCTCATGACTGATTTGCTTGGCACACCTCCTCCTGAGTCCACTGCAAGGgtcagtatat ... aattttacagATTCGAAATGAAAAGGCTAAAAGGTATCTTAATAGCATGAGAAAAAAACAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGCACACCTCCTCCTGAGTCCACTGCAAGGgtcagtatatcaaaatctaatttgaagttttctgaaatcaattgcgcaggcttgtgacatggtttaattggagtaattctaaatttccaatgttcctttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC