Sequence
atgc intronic sequence ATGC exonic sequenceGTCAGAGTCTGCCGAGAGAAAGCAACCGGTCATGTATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAGgttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttctatccctgtttag
Basic information
species | Glycine max |
transcript | GLYMA20G35110.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35110.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G23310.1 (Arabidopsis thaliana), 5'ss of exon 4
GTCAGAGTCTGCCGAGAGAAAGCAACCGGTCATGTATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAGgttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttct-atccctgtttag
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GTTAGGATATGTAGGGAGAAGACAACAGGCAATGTCTATGCGATGAAAAAGCTTAAGAAATCTGAGATGCTCCGTAGAGGCCAGgtatct---ccttcaag--ctgcttttgtttgatatatctttgtt-tattatcgttcatgtttgttgaaatctgattctttttcag
upper sequence: GLYMA20G35110.1 (Glycine max), 5'ss of exon 3
lower sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 4
GTCAGAGTCTGCCGAGAGAAAGCAACCGGTCATGTATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAGgttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttctatccctgtttag
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GTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtatttaaattccttcaagtggctttcgt--ttgacatttgtttagt-tggttgatgtgaatgtggaatctgattttcag-----
upper sequence: GLYMA20G35110.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv05s0049g01220.t01 (Vitis vinifera), 5'ss of exon 3
GTCAGAGTCTGCCGAGAGAAAGCAACCGGTCATGTATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAGgttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttctatccc--tgtttag
|| ||||||||| | ||||| |||||| ||||||||||| |||||||| ||||||||||||||||||||||| || |||||||| | | || || || || || | ||| || | | | || || | |||| ||| || | |||||
GTTAGAGTCTGCAGGGAGAAGAAAACCGGCCATGTATATGCCATGAAGAAGCTTAAGAAATCAGAGATGCTTCGAAGGGGCCAGgt-atgacttctgttggcctggcagacaat-ttattgtgtgttatat-ttatttttcttattgcccgatttgcttcttaatatttag
upper sequence: GLYMA20G35110.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S22_429V6.1 (Physcomitrella patens), 5'ss of exon 3
GTCAGAGTCTGCCGAGAGAAAGCAACCGGTCATGTATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAGgt-tacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttctatccctgtttag------------------------------------------------------------------------------------------------------------------
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GTGAGGTTATGCCGAGAGAAATCAAGTACAACTGTGTATGCCATGAAGAAGCTGAAGAAGTCCGAGATGCTTCGGAGAGGCCAGgtacgtcacgtgtatatatgtggaagttgtttatagaattgtatctgtctttatttgccgtttgccaaaatcatataactctgaagaatcgactgaaggtcaaatctggagttattgttatgttttgttactcactttagtaatcgaaatctgaaggggattactttaccattttaatcaatggataaacactattgcag
upper sequence: GLYMA20G35110.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S87_129V6.1 (Physcomitrella patens), 5'ss of exon 3
GTCAGAGTCTGCCGAGAGAAAGCAACCGGTCATGTATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAGgttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtct--tgttaaattcattggttactttctatccctgtttag----------------
|| || | ||| |||||||| ||| | || ||||| ||||| ||||| ||||| || ||||||||||| ||||||||||| |||| | || || | ||| | | |||| |||| ||| | ||| | | | |||| |||
GTGAGGTTGTGCAGAGAGAAAACAAGTTCTACAGTCTATGCCATGAAAAAACTGAAGAAGTCTGAGATGCTTCGAAGAGGCCAGgtactttaatctttgtatttttctat--ttgcttgatagaatcgtgtccactgtggagatcactt-tcaaaagatatcggatgctaggaaaacgggagaaattMapped 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|193327700|gb|FK296367.1|FK296367EST: TATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAG GTTGAACATGTAAAAGCTGAGAGGAATCTACTTGCAGGAGTTGATAG
genomic: TATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAGgttacaaaat ... ccctgtttagGTTGAACATGTAAAAGCTGAGAGGAATCTACTTGCAGAAGTTGATAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCAGAGTCTGCCGAGAGAAAGCAACCGGTCATGTATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAGgttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttctatccctgtttag
- - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG