Sequence
atgc intronic sequence ATGC exonic sequenceCTGGGCCATCAATCTGATGGCTGATGTTGTCCTACATGAGCATGTTAATAAGATGAATGCGCGTAACATTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgtttccatattttttcattctcaagtgactgcaaggaagaaaagatgtaccatacaagtgctatatattttcattttctactttactaaattgcat...
Basic information
species | Glycine max |
transcript | GLYMA12G31080.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G31080.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os12g05900.1 (Oryza sativa), 5'ss of exon 4
CTGGGCCATCAATCTGATGGCTGATGTTGTCCTACATGAGCATGTTAATAAGATGAATGCGCGTAACATTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgtttccatattttttcattctcaagtgactgcaaggaagaaaagatgtaccatacaagtgctatatattttcat-tttctactttactaaattgcat
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CTGGGCTGTTAATTTGATGGCTGATGTTGTCCAAGAAGAGCAAATAAACAAGATGAATGCGCGCAATATTGCCATGGTTTTTGCACCAAATATGACTCAGgt----------agtgtgttatcctattgcgat--catggtactgatatttcattaggtggattctaactgttgtcacacatgtaatgcag----------
upper sequence: GLYMA12G31080.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os11g05540.1 (Oryza sativa), 5'ss of exon 4
CTGGGCCATCAATCTGATGGCTGATGTTGTCCTACATGAGCATGTTAATAAGATGAATGCGCGTAACATTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgtttccatattttttcattctcaagtgactgcaag-gaagaaaagatgtaccatacaagtgc-tatatattttcattttctactttactaaattgcat
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GTGGGCAGTTAATTTAATGGCTGATGTTGTCCAAGAAGAACAGATAAACAAGATGAATGCTCGTAACATTGCTATGGTTTTTGCACCAAATATGACTCAGgtaatgcactgt-cctaataataaacttatgattttaagtgtggtcgatgcttactgt-catgcacatatgtaatgcag-----------------------
upper sequence: GLYMA12G31080.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0080g00580.t01 (Vitis vinifera), 5'ss of exon 4
CTGGGCCATCAATCTGATGGCTGATGTTGTCCTACATGAGCATGTTAATAAGATGAATGCGCGTAACATTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgtttccatattttttcattctcaagtgactgcaaggaagaaaagatgtac-catacaagtgctatatattttcattttctactttactaaattgcat--
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TTGGGCCATCAACCTCATGGCAGATGTCGTCCAGGAGGAGCATCTAAACAAAATGAATGCACGCAACATTGCAATGGTCTTTGCACCAAACATGACTCAGgtgaggttgaatggtttacgcttcttgaa-aattgtcc--aagtagggatttgcatgtccagatgaaattgaatgaatatgacgttctcattgcattttaaat
upper sequence: GLYMA12G31080.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S107_15V6.1 (Physcomitrella patens), 5'ss of exon 5
CTGGGCCATCAATCTGATGGCTGATGTTGTCCTACATGAGCATGTTAATAAGATGAATGCGCGTAACATTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtg--------tttccata-ttttttcattctcaagtgactgcaaggaagaaaagatgtaccatacaag-tgctatatattttcattttctactttactaaattgcat------------------------------------------------------------------------------------
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CTGGGCCATCAACCTCATGGCGGATGTGGTGGAGCTGGAGTCTTACAACAAGATGAATGCTCGCAACATTGCTATGGTTTTTGCTCCGAACATGACACAGgtatagagcacctcttcggtggtctctttcttttgaaactagtttagagctaaaactgtgtagcgtgttgtctcccgtgttttctcatgatct-ttgcacattatttcagcctcgaaggtcgtttgttgttagttggtgttcgatctgttgacgaaggtcatctctttgataatttgagtttcttgccctgcagMapped 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|10236141|gb|BE804959.1|BE804959EST: AGATGAATGCGCGTAACATTGCCATGGTTTTTGCACCAAACATGACTCAG ATGGCAGACCCTATATCTGCATTGATGTATGCAGTTCAAGTAATGAACTTC
genomic: AGATGAATGCGCGTAACATTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgtttcc ... ctgattgcagATGGCAGACCCTATATCTGCATTGATGTATGCAGTTCAAGTAATGAACTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGGGCCATCAATCTGATGGCTGATGTTGTCCTACATGAGCATGTTAATAAGATGAATGCGCGTAACATTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgtttccatattttttcattctcaagtgactgcaaggaagaaaagatgtaccatacaagtgctatatattttcattttctactttactaaattgcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaagaaa