Sequence
atgc intronic sequence ATGC exonic sequenceCACCATCAACATGGAAGATGGCAAGCGAGGATTGGAAGAGTTGCTGGCAACAAGGATCTCTACTTGGGAACTTTCAGtaatatttagttatttaatcctatgcaccaaaaatatctaaatatggcagtcttacctcacattttacaattgatgctggctaaaaaaacattttagcat...
Basic information
species | Glycine max |
transcript | GLYMA18G47980.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G47980.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os02g40070.1 (Oryza sativa), 5'ss of exon 7
-CACCATCAACATGGAAGATGGCAAGCGAGGATTGGAAGAGTTGCTGGCAACAAGGATCTCTACTTGGGAACTTTCAGtaatatttagttatttaatcctatgcaccaaaaatatctaaatatggcagtcttacctcacattttacaattgatgctggctaaaaaaacattttagcat-----
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GCACCATCAGCATGGGAGATGGCAAGCAAGGATAGGGAGGGTTGCAGGAAACAAGGACCTCTACTTAGGCACCTTCAgtaag--ctgctacactgatcttag--acctgtctcatctaaacttaatcgctct-cctaatgaag-atccttaaaactaatcaatgactagtcatagtgttatat
upper sequence: GLYMA18G47980.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os04g42570.1 (Oryza sativa), 5'ss of exon 8
-CACCATCAACATGGAAGATGGCAAGCGAGGATTGGAAGAGTTGCTGGCAACAAGGATCTCTACTTGGGAACTTTCAGtaatatttagttatttaatcctatgcaccaaaaata-tctaaatat-ggcagtcttacctcacatttta---caattgatgc-tggctaaaaaaacattttagcat
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GCATCATCAGCATGGGAGATGGCAGGCAAGGATAGGGCGAGTTGCAGGCAACAAGGATATCTACCTAGGCACCTTCAgtaag--ccaattataccaactagcacacagaagctaatctatttgttaattaagctagttaagatcctctgttaattgaaatatatccataaaagtactta-----
upper sequence: GLYMA18G47980.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G366434_T01 (Zea mays), 5'ss of exon 7
-CACCATCAACATGGAAGATGGCAAGCGAGGATTGGAAGAGTTGCTGGCAACAAGGATCTCTACTTGGGAACTTTCAGtaa--tatttagttatttaatcctatgcaccaaaaatatcta-aatatggcagtcttacctcacatt---ttacaattgatgctggctaaaaaaacattttagcat
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ACATCATCAGCATGGGAGATGGCAAGCAAGGATAGGGAGAGTTGCAGGAAACAAGGATCTTTACTTGGGCACATTCAgtaagctagctagctgccttcttttcttgtttgattgttttgagaactcagtgaagctagcacccattgattagtgattaatgcaactcataaaaactaa-------
upper sequence: GLYMA18G47980.1 (Glycine max), 5'ss of exon 10
lower sequence: AT5G17430.1 (Arabidopsis thaliana), 5'ss of exon 8
-CACCATCAACATGGAAGATGGCAAGCGAGGATTGGAAGAGTTGCTGGCAACAAGGATCTCTACTTGGGAACTTTCAGtaatatttagttatttaatcctatgcaccaaaaatatctaaatatg-gcagtcttacctcac---attttacaattgatgctggctaaaaaaacattttagcat
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GCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCGgtacatttt--ccaataaaatctatatactataagatattaaatatacacaaatatatctaagtgaatcatacaaattatgtag---------------------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|14258884|gb|BG881792.1|BG881792EST: AGGATTGGAAGAGTTGCTGGCAACAAGGATCTCTACTTGGGAACTTTCAG CACCCAAGAGGAGGCAGCAGAAGCATATGATGTAGCAGCAATCAAATTCAG
genomic: AGGATTGGAAGAGTTGCTGGCAACAAGGATCTCTACTTGGGAACTTTCAGtaatatttag ... atttttcaggCACCCAAGAGGAGGCAGCAGAAGCATATGATGTAGCAGCAATCAAATTCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACCATCAACATGGAAGATGGCAAGCGAGGATTGGAAGAGTTGCTGGCAACAAGGATCTCTACTTGGGAACTTTCAGtaatatttagttatttaatcctatgcaccaaaaatatctaaatatggcagtcttacctcacattttacaattgatgctggctaaaaaaacattttagcat
- - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaaaaaa