Sequence
atgc intronic sequence ATGC exonic sequenceGAAAAAGAAGAAACAGAAAAGTCAAGAGGTTCCAATGTTTATGGCAGAACCAATGAGAGCATCAAATTCTTTTGTTGGCACGGAAGAGTACATTGCTCCGgtttgttattcctggacatattatacattattattgagcagcaaaaactacggttcaaatacgtattttattgtattgaatgtaccaattattatacaca...
Basic information
species | Glycine max |
transcript | GLYMA13G40550.1 |
intron # | 18 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G40550.1 (Glycine max), 5'ss of exon 18
lower sequence: LOC_Os11g01140.1 (Oryza sativa), 5'ss of exon 19
GAAAAAGAAGAAACAGAAAAGTCAAGAGGT-TCCAATGTTTATGGCAGAACCAATGAGAGCATCAAATTCTTTTGTTGGCACGGAAGAGTACATTGCTCCGgtttgt---tat----tcctggacatattatacattattattgagcagcaaaaactacggttcaaatacgtattttattgtattgaatgtaccaattattatacaca-----
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-TGAGAAAAAAGGGAGAAAAAACGGGAGTTACCCCATATTTTTTGCTGAACCTATGCGAGCATCCAATTCATTTGTTGGCACGGAGGAGTACATTGCGCCTgtacgtgcatatggtcttctaacttacctgttctatactgtttggcaagcttttattcattcccaatatttcatctttggtactgagtctgtgcatccttgtctgtttgcag
upper sequence: GLYMA13G40550.1 (Glycine max), 5'ss of exon 18
lower sequence: GRMZM2G001457_T02 (Zea mays), 5'ss of exon 18
GAAAAAGAAGAAACAGAAAAGTCAAGAGGTTCCAATGTTTATGGCAGAACCAATGAGAGCATCAAATTCTTTTGTTGGCACGGAAGAGTACATTGCTCCGgtttgt---tattcctg-gacatattat------acattattattgag-----cagcaaaaactacggttcaaatacgtattttat-tgtattgaatgtaccaattattatacaca-------------------------
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GAAGAAAAAGAGGAGGAAGAGCAGGAGTAATCCCATATTTTTTGCTGAACCAATGCGAGCATCAAATTCTTTTGTTGGTACAGAGGAGTACATTGCACCGgtatttatatatatatgtaatatgttgttgctccactttatctatgtgattttccctaacattttcatttcttgtctctatttgacatgtgtgatagtcatcatctgttttatcaatccttgtattgtatgcatgctgtag
upper sequence: GLYMA13G40550.1 (Glycine max), 5'ss of exon 18
lower sequence: AT3G45780.1 (Arabidopsis thaliana), 5'ss of exon 18
GAAAAAGAAGAAACAGAAAAGTCAAGAGGTTCCAATGTTTATGGCAGAACCAATGAGAGCATCAAATTCTTTTGTTGGCACGGAAGAGTACATTGCTCCGgtttgttattcctggacatattatacattattattgagcagcaaaaactacggttcaaatacgtattttatt--gtattgaatgtaccaattattatacaca-
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GAAGAAAAAGCAACAAAAGAGTCAACAAACTCCAATCTTCATGGCTGAACCAATGCGTGCATCAAACTCATTTGTTGGCACTGAAGAGTACATTGCTCCGgttagt-----------atattatatataccaatttaagtacagtgattaaggtatttaccattgtcttaaccagtagttgatgtctca-----tatggatag
upper sequence: GLYMA13G40550.1 (Glycine max), 5'ss of exon 18
lower sequence: Vv06s0004g03700.t01 (Vitis vinifera), 5'ss of exon 19
GAAAAAGAAGAAACAGAAAAGTCAAGAGGTTCCAATGTTTATGGCAGAACCAATGAGAGCATCAAATTCTTTTGTTGGCACGGAAGAGTACATTGCTCCGgtttgt-tattcctggacatat--tatacattattattgagcagcaaaaactacggttcaaatacgtattttattgtattgaatgtaccaattattatacaca
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AAAGAAAAGGCAACATAAAGGTCAACAGAACCCAATATTCATGGCTGAACCTATGCGAGCATCAAATTCATTCGTTGGTACTGAAGAGTACATAGCTCCGgtttgtgcacttttaaacctgcgctttattttattttttatgaaaagaatttctgggtc---tatagttgtggatgctgcctctgtttacttgagtacagaca
upper sequence: GLYMA13G40550.1 (Glycine max), 5'ss of exon 18
lower sequence: EFJ32904 (Selaginella moellendorffii), 5'ss of exon 19
GAAAAAGAAGAAACAGAAAAGT-CAAGAGGTTCCAATGTTTATGGCAGAACCAATGAGAGCATCAAATTCTTTTGTTGGCACGGAAGAGTACATTGCTCCGgtttgttattcctggacatattatacattattattgagcagcaaaaactacggttcaaatacgtattttattgtattgaatgtaccaattattatacaca
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-ACGGAAGAGAAAGAAAGAAGCACCAGTTCCCCCTACGTTTGTCGTGGAGCCTGTTGCAAGATCAAATTCTTTCGTTGGCACGGAGGAATACATTGCTCCTgtaagcagattttttaaagatgagaagtt--tgtcatttttctttctttctgttttgcag----------------------------------------
upper sequence: GLYMA13G40550.1 (Glycine max), 5'ss of exon 18
lower sequence: EFJ15768 (Selaginella moellendorffii), 5'ss of exon 18
GAAAAAGAAGAAACAGAAAAGT-CAAGAGGTTCCAATGTTTATGGCAGAACCAATGAGAGCATCAAATTCTTTTGTTGGCACGGAAGAGTACATTGCTCCGgtttgttattcctggacatattatacattattattgagcagcaaaaactacggttcaaatacgtattttattgtattgaatgtaccaattattatacaca
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-ACGGAAGAGAAAGAAAGAAGCACCAGTTCCCCCTACGTTTGTCGCGGAGCCTGTTGCAAGATCAAATTCTTTCGTTGGCACGGAGGAATACATTGCTCCTgtaagcagatttttgaaagttgagaagtt--tgtcatttttctttctttctgttttgcag----------------------------------------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|19270595|gb|BM886851.1|BM886851EST: CAATGAGAGCATCAAATTCTTTTGTTGGCACGGAAGAGTACATTGCTCCG GAAATTATAACTGGTTCAGGTCACACAAGTGCTGTGGATTGGTGGGCTCTA
genomic: CAATGAGAGCATCAAATTCTTTTGTTGGCACGGAAGAGTACATTGCTCCGgtttgttatt ... acttgtgcagGAAATTATAACTGGTTCAGGTCACACAAGTGCTGTGGATTGGTGGGCTCTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAAAAGAAGAAACAGAAAAGTCAAGAGGTTCCAATGTTTATGGCAGAACCAATGAGAGCATCAAATTCTTTTGTTGGCACGGAAGAGTACATTGCTCCGgtttgttattcctggacatattatacattattattgagcagcaaaaactacggttcaaatacgtattttattgtattgaatgtaccaattattatacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA