Sequence
atgc intronic sequence ATGC exonic sequenceTGCGGCCAAAGACATTAAGTTTGGTGTGGAGGCTCGGGCTCTGATGCTTAAGGGTGTCGAAGAGCTCGCTGATGCCGTTAAAGTAACAATGGGCCCTAAGgtaaccaagcttatgcctgatagtttcttggcaaaagttgtacctgtgtttttattcaatcatttatttattcggttttctaagggtagagcatgtcttttggatctaggattgatatttcaatcctagtcccggcattttagttggtgttgatcacgattgttttgttaaacttgtgtttttttag
Basic information
species | Glycine max |
transcript | GLYMA20G33910.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g04970.1 (Oryza sativa), 5'ss of exon 3
TGCGGCCAAAGACATTAAGTTTGGTGTGGAGGCTCGGGCTCTGATGCTTAAGGGTGTCGAAGAGCTCGCTGATGCCGTTAAAGTAACAATGGGCCCTAAGgtaaccaagcttatgcctgatagtttcttggcaaaagttgtacctgtgtttttattcaatcatttatttattcggtt-ttctaagggtagagcatgtcttttggatctaggattgatatttcaatcctagtcccggcattttagttggtgttgatcacgattgttttgttaaacttgtgtttttttag
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TGCTGCCAAGGACATCAAGTTTGGTGTCGAGGCCCGGGCCTTGATGTTGAGGGGTGTTGAGGAGTTGGCTGATGCGGTCAAAGTGACAATGGGTCCTAAGgta--taaact-----ctggtcctgtcttcgagcaggtt------------tgatttcatggtttgagagtctgattgcagtggagattgtgcatgtataattgatattaggtttgggc---------------------------------------------------------------------
upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G458208_T01 (Zea mays), 5'ss of exon 2
TGCGGCCAAAGACATTAAGTTTGGTGTGGAGGCTCGGGCTCTGATGCTTAAGGGTGTCGAAGAGCTCGCTGATGCCGTTAAAGTAACAATGGGCCCTAAGgtaaccaagcttatgcctg-atagtttcttggcaaa-agttgtac-ctgtgtttttattcaatcatttatttattcggttttctaagggtagagcatgtcttttggatctaggattgatatttcaatcctagtcccggcattttagttggtgttgatcacgattgttttgttaaacttgtgtttttttag
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TGCTGCGAAGGACATCAAGTTTGGTGTTGAGGCCCGTGCTCTGATGTTGAGGGGTGTTGAGGAGTTGGCAGATGCTGTCAAAGTGACAATGGGACCTAAGgta--taaccacattcttacacagataataaacagttacctgaacactatgattgactaccag-attttcttgcagtaccttctagttatgctgaacacttgt---------------------------------------------------------------------------------------
upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G416120_T01 (Zea mays), 5'ss of exon 2
TGCGGCCAAAGACATTAAGTTTGGTGTGGAGGCTCGGGCTCTGATGCTTAAGGGTGTCGAAGAGCTCGCTGATGCCGTTAAAGTAACAATGGGCCCTAAGgtaaccaagcttatgcctgatagtttcttggcaaaagttgtacctgtgtttttattcaatcatttatttattcggttttctaagggtagagcatgtcttttggatctaggattgatatttcaatcctagtcccggcattttagttggtgttgatcacgattgttttgttaaacttgtgtttttttag
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TGCTGCCAAGGACATCAAGTTTGGTGTTGAGGCCCGTGCTCTGATGTTGAGGGGTGTTGAGGAGTTGGCAGACGCTGTCAAAGTGACAATGGGTCCTAAGgta--taaccacattctt-ata--cagatgacaaaca--gttactg-atcattatgaa------tgactaccaaattttcttaa--tacaacacatcatcgcattctagttatgct-----------------------------------------------------------------------
upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G23990.1 (Arabidopsis thaliana), 5'ss of exon 2
TGCGGCCAAAGACATTAAGTTTGGTGTGGAGGCTCGGGCTCTGATGCTTAAGGGTGTCGAAGAGCTCGCTGATGCCGTTAAAGTAACAATGGGCCCTAAGgtaaccaagcttatgcctgatagtttcttggcaaaagttgtacctgtgtttttattcaatcatttatttattcggttttctaagggtagagcatgtcttttggatctaggattgatatttcaatcctagtcccggcattttagttggtgttgatcacgattgttttgttaaacttgtgtttttttag
||| || ||||| |||||||||||||| || ||||| ||| |||||||||||||||| ||||| || |||||||| |||||||| || ||||| || |||||| | || | | | | ||| | ||| || || ||| || || ||| | | | | | | || | | ||| | || || || || || | |||| || | | || ||
TGCAGCGAAAGAGATTAAGTTTGGTGTTGAAGCTCGAGCTTTGATGCTTAAGGGTGTTGAAGATCTTGCTGATGCTGTTAAAGTCACCATGGGTCCCAAGgtactc----tttttcttctacacattttgatttgatttggacatg-------atttggccagaggttccttccttagcatgtgatttggg--tgaccggttgattctgtatcga--atttggtctaagactttctgctttatgtgattctaattttgaag--------------------------
upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ32351 (Selaginella moellendorffii), 5'ss of exon 1
TGCGGCCAAAGACATTAAGTTTGGTGTGGAGGCTCGGGCTCTGATGCTTAAGGGTGTCGAAGAGCTCGCTGATGCCGTTAAAGTAACAATGGGCCCTAAGgtaaccaagcttatgcctgatagtttcttggcaaaagttgtacctgtgtttttattcaatcatttatttattcggttttctaagggtagagcatgtcttttggatctaggattgatatttcaatcctagtcccggcattttagttggtgttgatcacgattgttttgttaaacttgtgtttttttag
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CTCCGCCAAGGAAATCAAGTTTGGAGTGGAGGCTAGGGCTCTTATGCTCCAGGGCGTGGAGCAGCTCGCTGATGCCGTCAAAGTAACCATGGGTCCCAAGgtattctatccatcgcct-----ttttccaatgaacaacaaactaagatcgctctttttctttttccctttgcag----------------------------------------------------------------------------------------------------------------
upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ20894 (Selaginella moellendorffii), 5'ss of exon 1
TGCGGCCAAAGACATTAAGTTTGGTGTGGAGGCTCGGGCTCTGATGCTTAAGGGTGTCGAAGAGCTCGCTGATGCCGTTAAAGTAACAATGGGCCCTAAGgtaaccaagcttatgcctgatagtttcttggcaaaagttgtacctgtgtttttattcaatcatttatttattcggttttctaagggtagagcatgtcttttggatctaggattgatatttcaatcctagtcccggcattttagttggtgttgatcacgattgttttgttaaacttgtgtttttttag
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CTCCGCCAAGGAAATCAAGTTTGGAGTGGAGGCTAGGGCTCTTATGCTCCAGGGCGTGGAGCAGCTCGCTGATGCCGTCAAAGTAACCATGGGTCCCAAGgtattctatccatcgcct-----ttttccaatgaacaacaaacttct-tttttttccttttgtag--------------------------------------------------------------------------------------------------------------------------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|209725419|gb|BW658281.1|BW658281EST: AGGGTGTCGAAGAGCTCGCTGATGCCGTTAAAGTAACAATGGGCCCTAAG GGGCGTAATGTGGTTATTGAGCAAAGTTTTGGAGCACCTAAAGTGACGAAA
genomic: AGGGTGTCGAAGAGCTCGCTGATGCCGTTAAAGTAACAATGGGCCCTAAGgtaaccaagc ... gtttttttagGGGCGTAATGTGGTTATTGAGCAAAGTTTTGGAGCACCTAAAGTGACGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCGGCCAAAGACATTAAGTTTGGTGTGGAGGCTCGGGCTCTGATGCTTAAGGGTGTCGAAGAGCTCGCTGATGCCGTTAAAGTAACAATGGGCCCTAAGgtaaccaagcttatgcctgatagtttcttggcaaaagttgtacctgtgtttttattcaatcatttatttattcggttttctaagggtagagcatgtcttttggatctaggattgatatttcaatcctagtcccggcattttagttggtgttgatcacgattgttttgttaaacttgtgtttttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT