Sequence
atgc intronic sequence ATGC exonic sequenceGTTAAGAGAGGCCTTTGGTCCCCCGAGGAAGATGAGAAGCTCATCAGATACATTACCACTCACGGCTATGGTTGCTGGAGTGAAGTTCCAGAGAAAGCTGgtctcttctttcattttcttccttgctagcttgatgatatagagaattgcgccctcaacttatttttgtgatgaaccaaccttttgctttttctttatgaagtttaattcttaatttcgtgtatctttcag
Basic information
species | Glycine max |
transcript | GLYMA01G43120.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G43120.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os08g05520.1 (Oryza sativa), 5'ss of exon 1
GTTAAGAGAGGCCTTTGGTCCCCCGAGGAAGATGAGAAGCTCATCAGATACATTACCACTCACGGCTATGGTTGCTGGAGTGAAGTTCCAGAGAAAGCTGgtct--cttctttcattttcttccttgctagcttgatgatatagagaattgcgccctcaacttatttttgtgatgaaccaaccttttgctttttctttatgaagtttaattcttaatttcgtgtatctttcag-----------------------------------
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GTGAAGAGGGGCCTCTGGTCTCCTGAGGAAGATGAGAAGCTCATCAGATACATCACCACCCATGGCTATGGCTGCTGGAGCGAGGTCCCGGAGAAAGCCGgtacgccgcatatcgtcgatcgatcgattaatcccccaatatcttga-ttgattgatgaacat-tcaatgagatggatgaactatcattgcttgattgatgaacatt--ttcttgaggaactg-atctgtcaattgctgaattgtgtgcaatgtggtggtttgtgaag
upper sequence: GLYMA01G43120.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G325907_T01 (Zea mays), 5'ss of exon 1
GTTAAGAGAGGCCTTTGGTCCCCCGAGGAAGATGAGAAGCTCATCAGATACATTACCACTCACGGCTATGGTTGCTGGAGTGAAGTTCCAGAGAAAGCTGgtc--tcttctttcattttcttccttgctagcttgatgatatagagaattgcgccctcaacttatttttgtg-atgaaccaaccttttgctttttctttatgaagtttaattcttaatttcgtgtatctttcag
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GTGAAGAGGGGGCTCTGGTCCCCTGAGGAGGACGAGAAGCTCATCAGGTACATCACCACCCATGGCTACGGGTGCTGGAGCGAGGTCCCCGAGAAGGCCGgtacgtatagatcgaggcggctatgttctctctctcttgaattgaatcttgatgccttgcctccaccgtgcatgcatatagaccaatcagtttgtcgttg----------------------------------
upper sequence: GLYMA01G43120.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv02s0025g00320.t01 (Vitis vinifera), 5'ss of exon 1
GTTAAGAGAGGCCTTTGGTCCCCCGAGGAAGATGAGAAGCTCATCAGATACATTACCACTCACGGCTATGGTTGCTGGAGTGAAGTTCCAGAGAAAGCTGgtctcttctttcattttcttccttgctagcttgatgatatagagaattgcgccctcaacttatttttgtgatgaaccaaccttttgctttttctttatgaagtttaattcttaatttcgtgtatctttcag
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GTAAAGAGGGGGCTTTGGTCCCCTGAGGAAGACGAAAAGCTCATCAGATACATCACCACCTATGGCTATGGTTGTTGGAGTGAAGTCCCTGAGAAAGCTGgtctcacctctctctctctctctctctc-cattctcttacaca-aaccacacatcccacacatctgaatataagctgaaaactgaaatggttttttcttttcttttcttttctttctggtcgaag------
upper sequence: GLYMA01G43120.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S189_29V6.1 (Physcomitrella patens), 5'ss of exon 1
GTTAAGAGAGGCCTTTGGTCCCCCGAGGAAGATGAGAAGCTCATCAGATACATTACCACTCACGGCTATGGTTGCTGGAGTGAAGTTCCAGAGAAAGCTGgtctcttctttcattttcttccttgctagcttgatgatatagagaattgcgccctcaactt--atttttg-tgatgaaccaaccttttgctttttctttatgaagtttaattcttaatttcgtgtatctttcag
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CTGAAGAAAGGCTTGTGGTCCCCGGAGGAAGATGAAAAGCTTGTGCGATACATTACCAAGCACGGCCATGGCTGCTGGAGCGCTGTTCCCAAGCAAGCAGgttcgtgcgcctgcttcatgtcttacaagtt----------gtagattggatccttaatgtcgatcgtcgacaatgggccagcagccaatttggagcttgcgaaactttg------------------------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|192304167|gb|FG993493.1|FG993493EST: CATTACCACTCACGGCTATGGTTGCTGGAGTGAAGTTCCAGAGAAAGCTG GGCTTCAAAGGTGTGGTAAGAGTTGTCGCCTGAGATGGATTAATTATTTGA
genomic: CATTACCACTCACGGCTATGGTTGCTGGAGTGAAGTTCCAGAGAAAGCTGgtctcttctt ... tatctttcagGGCTTCAAAGGTGTGGTAAGAGTTGTCGCCTGAGATGGATTAATTATTTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTAAGAGAGGCCTTTGGTCCCCCGAGGAAGATGAGAAGCTCATCAGATACATTACCACTCACGGCTATGGTTGCTGGAGTGAAGTTCCAGAGAAAGCTGgtctcttctttcattttcttccttgctagcttgatgatatagagaattgcgccctcaacttatttttgtgatgaaccaaccttttgctttttctttatgaagtttaattcttaatttcgtgtatctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG