Sequence
atgc intronic sequence ATGC exonic sequenceATAAGGTTATTGGTGTGGAAGCTTTGAGGGTAATTGATGGATCCACTTTTCATCGCTCACCTGGTACAAATCCTCAAGCTACTGTAATGATGCTTGGAAGgtaagtattggcacatatcaaccaatatagatattgtatttgataatgataatgatttaaaatacatttattgccttactctttcgataattatttttggtacaatttttttacag
Basic information
species | Glycine max |
transcript | GLYMA20G29370.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G29370.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G51950.2 (Arabidopsis thaliana), 5'ss of exon 4
ATAAGGTTATTGGTGTGGAAGCTTTGAGGGTAATTGATGGATCCACTTTTCATCGCTCACCTGGTACAAATCCTCAAGCTACTGTAATGATGCTTGGAAGgtaagtattggcacatatcaaccaatatagatattgtatttgataatgataatgatttaaaatacatttattgccttactctttcgataattatttttggtacaatttttttacag
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ACAGAGTCTTAGGCATTGATTCCTTAAGGGTCATCGATGGATCCACATTTCTCAAGTCTCCGGGGACTAATCCTCAAGCTACTGTTATGATGCTCGGAAGgtaaat----gcataaaccaaatgatccaaataatcta---aaacatgttaatgatttga-------ttaagaactgattgtgtcag--agtgttttgtgtag-------------
upper sequence: GLYMA20G29370.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv16s0100g00230.t01 (Vitis vinifera), 5'ss of exon 3
ATAAGGTTATTGGTGTGGAAGCTTTGAGGGTAATTGATGGATCCACTTTTCATCGCTCACCTGGTACAAATCCTCAAGCTACTGTAATGATGCTTGGAAGgtaagtattggcacatatcaaccaa-tatagatattgtatttgataatgataatgatttaaaatacatttattgccttactctttcgataattatttttggtacaatttttttacag
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ACAAGGTTATTGGCGTGGATGGGCTAAGAATTATAGATGGTTCTACCTTTAATCACTCTCCGGGGACTAATCCACAAGCTACTGTTATGATGCTTGGAAGgtacctagtcatttatcataatcaaatattcgtatt---ttttccattattactgattt--------tttttccttttaattttccaatgcag------------------------
upper sequence: GLYMA20G29370.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv16s0100g00240.t01 (Vitis vinifera), 5'ss of exon 2
ATAAGGTTATTGGTGTGGAAGCTTTGAGGGTAATTGATGGATCCACTTTTCATCGCTCACCTGGTACAAATCCTCAAGCTACTGTAATGATGCTTGGAAGgtaagtattggcacatatcaaccaa-tatagatattgtatttgataatgataa-tgatttaaaatacatttattgccttactctttcgataattatttttggtacaatttttttacag
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ACAAGGTTATTGGCGTGGATGGGCTAAGAATTATAGATGGTTCCACCTTTAATCACTCTCCGGGGACTAATCCACAAGCTACTGTTATGATGCTTGGAAGgtacctagtcgtttatcataatcaaatattcgtattttttttttccattattactgattt------tttttttccttttaattttctaatgcag------------------------
upper sequence: GLYMA20G29370.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S78_68V6.1 (Physcomitrella patens), 5'ss of exon 4
ATAAGGTTATTGGTGTGGAAGCTTTGAGGGTAATTGATGGATCCACTTTTCATCGCTCACCTGGTACAAATCCTCAAGCTACTGTAATGATGCTTGGAAGgtaagtatt-------ggcacatatcaaccaat-atagatattgtatttgataatgataatgatttaaaat-acat-ttattgccttactctt----tcgataattatttttggtacaattt--ttttacag-----------------------------------------------------------
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ACCGTGTCATTGGAGCCCACGGACTTAGAGTAATTGACGGATCCACTTTTAATTCTTCACCTGGCACAAATCCGCAAGCAACAGTAATGATGCTTGGCAGgtaggctttcatctgcaggacagattctctacttagtggagctgcgctttcgaaagttcacagttcttattcacatgttaccgaattgttattaattctgtgaagtgctctagattgacttcagtttggtagatatgtacactcaaccgtccttcgtacccaggtacttatgaacttgtatttgtattcagMapped 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|51335973|gb|CO979839.1|CO979839EST: CATCGCTCACCTGGTACAAATCCTCAAGCTACTGTAATGATGCTTGGAAG GTATATGGGAGAAAAGATTATAAAGAAAAGATTCTTCCATGGGCGGAAGTG
genomic: CATCGCTCACCTGGTACAAATCCTCAAGCTACTGTAATGATGCTTGGAAGgtaagtattg ... ttttttacagGTATATGGGAGAAAAGATTATAAAGAAAAGATTCTTCCATGGGCGGAAGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATAAGGTTATTGGTGTGGAAGCTTTGAGGGTAATTGATGGATCCACTTTTCATCGCTCACCTGGTACAAATCCTCAAGCTACTGTAATGATGCTTGGAAGgtaagtattggcacatatcaaccaatatagatattgtatttgataatgataatgatttaaaatacatttattgccttactctttcgataattatttttggtacaatttttttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG