Sequence
atgc intronic sequence ATGC exonic sequenceAGAAATCCAATACGGGTTTATTGGTTGGAAGTGGGGAATATACTCTTGTTTATGAGGATAATGAAGGAGACAGGATGCTTGTTGGAGATGTGCCGTGGCAgtaagcaccttatcattgtggatctgatgcatttttatcttattctattcaatattatattccatgactatagtttgatacattgccatgcagtggagta...
Basic information
species | Glycine max |
transcript | GLYMA07G01800.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01800.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g53880.4 (Oryza sativa), 5'ss of exon 5
-AGAAATCCAATACGGGTTTATTGGTTGGAAGTGGGGAATATACTCTTGTTTATGAGGATAATGAAGGAGACAGGATGCTTGTTGGAGATGTGCCGTGGCAgtaagcaccttatcattgtggatctgatgca-tttttatcttattctattcaatattatattcc--atgactatagtttgatac-attgccatgcagtggagta--------------------------------------------------
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ACAAAATATTTTATCAATT-GTTGGATGGGTCTGGTGAATATACTCTAGTTTATGAAGACAGTGAAGGAGACAGGATGCTGGTTGGGGACGTGCCATGGAAgtaagtttgctggtcccccttgtcatttacagtttttactggcatttacaaaataatcaaatcttaaaaacaacaaaaggacactgccaccataatttatattaggcaccaccaaaccatctaaattatttttcctgttctccaattcctgcag
upper sequence: GLYMA07G01800.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G51950.1 (Arabidopsis thaliana), 5'ss of exon 3
AGAAATCCAATACGGGTTTATTGGTTGGAAGTGGGGAATATACTCTTGTTTATGAGGATAATGAAGGAGACAGGATGCTTGTTGGAGATGTGCCGTGGCAgtaagcaccttatcattgtggatctgatgcattttta-tcttattctattcaatattatattccatgactata-gtttgatacattgccatgcagtggagta
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AAAAACCAATCACTGGATTATTAGATGGGAATGGAGAATATACTCTTACATATGAAGACAATGAAGGAGACAAGATGCTTGTAGGAGATGTTCCATGGCAgtaagaatcttttcttttctttttcgtttttttctgaatctgagtcagctttttgttctatctaaaggagaagtattagattcctagtcacatatttatt--
upper sequence: GLYMA07G01800.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G16500.1 (Arabidopsis thaliana), 5'ss of exon 3
AGAAATCCAATACGGGTTTATTGGTTGGAAGTGGGGAATATACTCTTGTTTATGAGGATAATGAAGGAGACAGGATGCTTGTTGGAGATGTGCCGTGGCAgtaagcaccttatcattgtggatctgatgcatttttatcttattctattcaatattatattccatgactatagtttgatacat-tgccatgcagtggagta-
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AGAAACCTATCATTGGATTATTAGATGGGAAAGGAGAATTTACTTTAACCTATGAAGACAATGAAGGGGACAAGATGCTTGTTGGGGATGTTCCATGGCAgtaagaatcttttccccttttgttctctgaatctg-attcagtgttttgcagaattagattct-tgatcatataacaacaaaagttctcagcttttaatcaa
upper sequence: GLYMA07G01800.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0002g03410.t01 (Vitis vinifera), 5'ss of exon 5
AGAAATCCAATACGGGTTTATTGGTTGGAAGTGGGGAATATACTCTTGTTTATGAGGATAATGAAGGAGACAGGATGCTTGTTGGAGATGTGCCGTGGCAgtaagcaccttatcattgtggatctgatgcatttttatctt----attctattcaatattatattccatgactatagtttgatacattgccatgcagtggagta
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AGAAAACTATTACTGGTTTGCTCGATGGGAGTGGCGAATATACGCTTGTTTACGAGGATAACGAAGGAGACAGAGTCCTTGTTGGGGATGTCCCATGGCAgtaagcatctaaccactgtggatctgatgcatttcaattattcaaatcccatttagtatgcaaatatgtacctct--tttgttctgtagttagagtttgtcc--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|10256297|gb|BE824063.1|BE824063EST: TATGAGGATAATGAAGGAGACAGGATGCTTGTTGGAGATGTGCCGTGGCA CATGTTTGTGTCGACAGTGAAGAGGCTGAGGGTGTTGAAGAGTTCTGATCT
genomic: TATGAGGATAATGAAGGAGACAGGATGCTTGTTGGAGATGTGCCGTGGCAgtaagcacct ... tgcttggcagCATGTTTGTGTCGACAGTGAAGAGGCTGAGGGTGTTGAAGAGTTCTGATCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAATCCAATACGGGTTTATTGGTTGGAAGTGGGGAATATACTCTTGTTTATGAGGATAATGAAGGAGACAGGATGCTTGTTGGAGATGTGCCGTGGCAgtaagcaccttatcattgtggatctgatgcatttttatcttattctattcaatattatattccatgactatagtttgatacattgccatgcagtggagta
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG