Sequence
atgc intronic sequence ATGC exonic sequenceATTTGTCATACTAGGTAACCATAGGGATGCATGGACATTTGGAGCGGTTGATCCCAATAGTGGCACTGCAGCACTGCTTGAGgtaacaatggatttgtttgtaggcattgttttgcttatttatatcaaaccaatggcacaagtgacatgtctcatgaaattag
Basic information
species | Glycine max |
transcript | GLYMA01G01000.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G01000.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g53810.1 (Oryza sativa), 5'ss of exon 3
ATTTGTCATACTAGGTAACCATAGGGATGCATGGACATTTGGAGCGGTTGATCCCAATAGTGGCACTGCAGCACTGCTTGAGgtaacaa--tggatttgtttgtaggcattgt-----tttgcttatttatatcaaaccaatggcacaagtgacatgtctcatgaaattag-------------
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ATATGTGATCATAGGGAACCATCGTGATGCCTGGACATTCGGAGCAGTTGATCCCAACAGTGGAACAGCAGCTATGCTCGAGgtaatcaattcagtttagaggagcaaattatacagatatgtcatctttcatcagacatttgg-agacatga-atatttcatcctttccctttctagttagcc
upper sequence: GLYMA01G01000.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G159171_T01 (Zea mays), 5'ss of exon 3
ATTTGTCATACTAGGTAACCATAGGGATGCATGGACATTTGGAGCGGTTGATCCCAATAGTGGCACTGCAGCACTGCTTGAGgtaa--------caatggat-ttgtttgtaggcattgttttgcttatttatatcaaaccaatggcacaagtgacatgt-----ctcatgaaattag-------------------
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ATATGTGATCATAGGCAACCATCGTGATGCTTGGACATTTGGAGCAGTTGATCCTAACAGTGGAACAGCAGCCATGCTTGAGgtaaactactactgctgaatatagtttgatggcata--ttcgacaatttcgagaaattctatttcaaaaaaaaaaaaaaaaaactgaagggacccggtttcctcccactgtatag
upper sequence: GLYMA01G01000.2 (Glycine max), 5'ss of exon 3
lower sequence: AT5G19740.1 (Arabidopsis thaliana), 5'ss of exon 3
ATTTGTCATACTAGGTAACCATAGGGATGCATGGACATTTGGAGCGGTTGATCCCAATAGTGGCACTGCAGCACTGCTTGAGgtaacaatggatttgtttgtaggcattgttttgcttatttatatcaaaccaatggcacaagtgacatgtctcatgaaattag-----
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ATATGTGATTCTTGGGAACCATAGAGACGCTTGGACTTTTGGAGCTGTTGATCCGAACAGTGGCACTGCGGTACTTATGGAGgcgagta-aaagttatctgcaa-catgtatttggtgaaagtttccaatgtttttattgcaatgagagatttt-tgaaactgttgtag
upper sequence: GLYMA01G01000.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv11s0016g03010.t01 (Vitis vinifera), 5'ss of exon 4
ATTTGTCATACTAGGTAACCATAGGGATGCATGGACATTTGGAGCGGTTGATCCCAATAGTGGCACTGCAGCACTGCTTGAGgtaacaatggatttgtttgtaggcattgttttgcttatttatatcaaaccaatggcacaagtgacatgtctcatgaaattag------------------------------
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ATTTGTTCTTCTTGGTAACCACCGGGATGCCTGGACATTTGGAGCTGTTGATCCCAATAGCGGCACTGCAACTCTGCTTGAGgtaattatg-atttcta---acacaaccttctgcaaatt-atatccaag-agaactacagcttccataattcaagaa--cagctcttcatctgatctctatgtggaatgtag
upper sequence: GLYMA01G01000.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ37632 (Selaginella moellendorffii), 5'ss of exon 3
ATTTGTCATACTAGGTAACCATAGGGATGCATGGACATTTGGAGCGGTTGATCCCAATAGTGGCACTGCAGCACTGCTTGAGgtaacaatggatttgtttgtaggcattgttttgcttatttatatcaaaccaatggcacaagtgacatgtctcatgaaattag
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GTATATTTTGCTCGGAAACCATCGAGATGCATGGACATTTGGAGCAGCCGACCCCAACAGTGGCACTGCATGTCTTCTTGAAgtaatgtttagcat-cgtgtagttcagtctgagcccctgcatttatag----------------------------------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|12773686|gb|BG238613.1|BG238613EST: GGACATTTGGAGCGGTTGATCCCAATAGTGGCACTGCAGCACTGCTTGAG G-GGCTCAAAG-CTAGG-AAGCT-CAGAAAAAAGGGTGGAGACCTAGAAGA
genomic: GGACATTTGGAGCGGTTGATCCCAATAGTGGCACTGCAGCACTGCTTGAGgtaacaatgg ... atgaaattagGTGGCTCAAAGGCTAGGGAAGCTTCAGAAAAAAGGGTGGAGACCTAGAAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTTGTCATACTAGGTAACCATAGGGATGCATGGACATTTGGAGCGGTTGATCCCAATAGTGGCACTGCAGCACTGCTTGAGgtaacaatggatttgtttgtaggcattgttttgcttatttatatcaaaccaatggcacaagtgacatgtctcatgaaattag
- - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG