Sequence
atgc intronic sequence ATGC exonic sequenceTGTTCCTTCAAAGAACAATTGCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTAATGGCTTGTTGGGAGTTAGAGCAATCATTGCAGAGTCTAACAGgtgcacagaaagtgtcttcttttagtaattgtcgcatcttaaaataaatgggaagatttgttgcgtgatagaatgaaaaattgaaaatagcatgtttcgc...
Basic information
species | Glycine max |
transcript | GLYMA17G32980.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G32980.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os06g43860.2 (Oryza sativa), 5'ss of exon 2
TGTTCCTTCAAAGAACAATTGCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTAATGGCTTGTTGGGAGTTAGAGCAATCATTGCAGAGTCTAACAGgt-gcacagaaagtgtcttcttttagtaattgtcgcatcttaaaataaatgggaagatttgttgcgtgatagaatgaaaaattgaaaatagcatgtttcgc---------
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TGTTCGTTCAAGGAACAACTACAGCAACATGTGCGTGTTCATGCAATGGAAGCAGTAATGGCTTGCTGGGAACTTGAACAAACTTTACAGAGCCTTACAGgtagcacaaaaaaa----tctagttgatattattcaacatgagaata-----gtggactcctgatttta-ggaagagaaacttaaagttattatttctctctgtttaatt
upper sequence: GLYMA17G32980.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os08g19650.1 (Oryza sativa), 5'ss of exon 2
TGTTCCTTCAAAGAACAATTGCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTAATGGCTTGTTGGGAGTTAGAGCAATCATTGCAGAGTCTAACAGgtgcacagaaagtgtcttcttttagtaattgtcgcatcttaaaataaatgggaagatttgttgcgtgatagaatgaaaa-----attgaaaatagcatgtttcgc
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TGTTCGTTTAAAGAGCAGCTACAGCAGCATGTCCGTGTTCATGCTATGGAAGCAGTAATGGCATGCTGGGAACTTGAACAAAACCTTCAGAGTTTGACAGgtacaacctttttgttatctcttt-caattttcataatttacaa--aagtaaaacttttattaggaaaaaaaatccaaacttttcttggtaatgcaatgatag--
upper sequence: GLYMA17G32980.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G055243_T01 (Zea mays), 5'ss of exon 2
TGTTCCTTCAAAGAACAATTGCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTAATGGCTTGTTGGGAGTTAGAGCAATCATTGCAGAGTCTAACAGgtgcacagaaagtgtcttctttta-gtaattgtcgcatcttaaaataaatgggaagatttgttgcgtgatagaatgaaaaattgaaaatagcatgtttcgc--
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TGTTCATTCAAGGAACAACTCCAGCAGCATGTGCGTGTTCATGCAATGGAAGCAGTCATGGCTTGTTGGGAGCTCGAACAAACTTTACAAAGCCTTACAGgta-gctgaagctttctactttaatatttttagaggaaaatgctttagctgcccctttttggagtctgcttgatgtacaagt--acaactccctacttaatat
upper sequence: GLYMA17G32980.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G433591_T02 (Zea mays), 5'ss of exon 3
TGTTCCTTCAAAGAACAATTGCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTAATGGCTTGTTGGGAGTTAGAGCAATCATTGCAGAGTCTAACAGgtgcacagaaagtgtcttctttta-gtaattgtcgcatcttaaaataaa--tgggaagatttgttgcgtgatagaatgaaaaattgaa-aatagcatgtttcgc
|| || ||||| ||||| |||| |||||||| || || ||||||||||||||||| |||| ||| |||||| | || ||||| || || || |||||||||| | | | | | | || | | | | ||| || | | || | | || | || | | || || ||| | | |
TGCTCATTCAAGGAACAGCTGCAGCAGCATGTACGTGTTCATGCAATGGAAGCAGTGATGGGTTGCTGGGAGCTTGAACAATCCTTACAAAGCCTAACAGgtggattgttttttttaaatctcgcgttaattcagaaacttggctgaagctttcatatatacactacttgcttttatcatcatttcaataattgtagcat----
upper sequence: GLYMA17G32980.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G370332_T01 (Zea mays), 5'ss of exon 2
TGTTCCTTCAAAGAACAATTGCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTAATGGCTTGTTGGGAGTTAGAGCAATCATTGCAGAGTCTAACAGgtgcacagaaagtgtcttcttttagtaattgtcgcatcttaaaataaatgggaagatttgttgcgtg-atagaatgaaaaattgaaaatagcatgtttcgc--
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TGCTCATTCAAGGAACAACTCCAGCAGCATGTACGTGTTCATGCAATGGAAGCAGTGATGGGTTGCTGGGAGCTTGAACAATCTTTACAAAGCCTAACAGgtagattgt---tttctttttttaatcttgtgttaattcagaaacgtgcctgaagctttcagatatacatcacttgcttttatcatttcaataattgcagcctMapped 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|192323926|gb|FK018647.1|FK018647EST: AGCAGTAATGGCTTGTTGGGAGTTAGAGCAATCATTGCAGAGTCTAACAG GAGTTTCACCTGGAGAAGGTACAGGGGCAACAATGTCTGATGATGAGAATG
genomic: AGCAGTAATGGCTTGTTGGGAGTTAGAGCAATCATTGCAGAGTCTAACAGgtgcacagaa ... tgatgaacagGAGTTTCACCTGGAGAAGGTACAGGGGCAACAATGTCTGATGATGAGAATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTTCCTTCAAAGAACAATTGCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTAATGGCTTGTTGGGAGTTAGAGCAATCATTGCAGAGTCTAACAGgtgcacagaaagtgtcttcttttagtaattgtcgcatcttaaaataaatgggaagatttgttgcgtgatagaatgaaaaattgaaaatagcatgtttcgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaataaa