Sequence
atgc intronic sequence ATGC exonic sequenceGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAGgtatgcttcttgctttgctttggtttctattcctgtctcatctctcttttattaaccattttattctccaccacttttcttctcagtttttgtagccaag...
Basic information
species | Glycine max |
transcript | GLYMA03G28570.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G28570.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os12g04500.1 (Oryza sativa), 5'ss of exon 3
GAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAGgta--tgc--ttcttgctttgctt--tggtttctatt-cctgtctcatctctcttttattaaccat----tttattctccaccac-----ttttcttctcagtttttgtagccaag
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GAGGTTGGAGTGAACCTGATCATCACAGACTACTGCATGCCTGGCATGACAGGATATGATCTTCTCAAGAAGATCAAGgtaattaccatctctgctctatttgattgtaccaaccatttgatttgatctactcaagatgacagtgaggtcagttcctgaatacagttttttcccttttggtttgttcaatcag-
upper sequence: GLYMA03G28570.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os11g04720.1 (Oryza sativa), 5'ss of exon 3
GAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAGgta--tgc--ttcttgctttgctt--tggtttctatt-cctgtctcatctctcttttattaaccat----tttattctccaccac-----ttttcttctcagtttttgtagccaag
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GAGGTTGCAGTGAACCTGATCATCACAGACTACTGCATGCCTGGCATGACAGGATATGATCTTCTCAAGAAGATCAAGgtaattaccatctctgctctatttgattgtaccaaccatttgatttgatctactcaagatgacagtgaggtcagttcctgaatacagttttttcccttttggtttgttcaatcag-
upper sequence: GLYMA03G28570.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G129954_T01 (Zea mays), 5'ss of exon 3
------------------GAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAGgta--tgcttc-ttgctttgctttggtttcta---ttcctgtctcatctctcttttat----taaccattttattctccaccactt-----------ttcttctcagtttttgtagccaag
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GATGTGGCTGCCAATCAGGATGTGGCTGTGAACCTGATCATCACAGACTACTGCATGCCTGGCATGACAGGATATGACCTGCTCAAGAAGATCAAGgtgactactgaactactccggcatgatcactgaacattctgtatagtgcttgctttctggcatgatcactgaagataacaaggcctaaagatgcatgtttggtttggtttgctctaccag-
upper sequence: GLYMA03G28570.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G57040.1 (Arabidopsis thaliana), 5'ss of exon 3
GAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAGgtatgcttcttgctttgcttt---ggtttctattcctgtctcatctctcttttattaaccatttt--attctccaccacttttcttctcagtttttgtagccaag-------------------------------------------------
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GTAGTTGAAGTGAATCTTATAATTACAGATTATTGTATGCCTGGCATGACTGGTTATGATTTGCTCAAGAAAGTCAAGgtacttttttttcctaatttaagaggaaagttttcatattttcagtcaagaaagtgagagaatgtcaataggagatgagattatatgctatttgatgtgtataaataaaatcttttgattaatctgggaattatcttgttctacaattttgcag
upper sequence: GLYMA03G28570.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G41310.1 (Arabidopsis thaliana), 5'ss of exon 3
GAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAGgtatg-cttcttgctttgctt----tggtttctattcctgtctcatctctcttttattaaccattttattctccaccacttttcttctcagtttttgtagccaag
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GAAGTTGAAATAAATCTAATAATTACAGATTACTGTATGCCTGGCATGACTGGTTATGATTTGCTCAAGAAAGTTAAGgtatttcttctcaatttggttactgtcttttccatctctggctaaattcgtttccagaaaaagaaataaagttttttactttagttttcttttccaaatg-----
upper sequence: GLYMA03G28570.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0007g05390.t01 (Vitis vinifera), 5'ss of exon 3
GAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAGgtatgcttcttgctttgctttggtttctattcctgtctcatctctcttttattaaccattttattctccaccacttttcttc---tcagtttttgtagccaag--
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GAAGTGGAGGTGAATCTTATAATTACTGACTACTGTATGCCTGGAATGACAGGCTATGATTTACTCAAAAAAATCAAGgtatgatttt--ctttatatt--ctcttgtcttttttctatcatttttttacccttc-tttttttctcaagctttcccatttagataattttctttctctgagacMapped 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|208040705|gb|GD839810.1|GD839810EST: ATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG GAATCTTCATCTTTGAGAAACATACCAGTGGTGATTATGTCATCTGAAAAT
genomic: ATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAGgtatgcttct ... tatatttcagGAATCTTCATCTTTGAGAAACATACCAGTGGTGATTATGTCATCTGAAAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAGgtatgcttcttgctttgctttggtttctattcctgtctcatctctcttttattaaccattttattctccaccacttttcttctcagtttttgtagccaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccacc