Sequence
atgc intronic sequence ATGC exonic sequenceATGATGGTCTTTTGGATCTGAGTGATGATGATTTTTTTCTTGCCGGGAGTTCTAGTGACGAAGCAGATGCGGATGATGAATGGACAGACAAAAGTGCAAGgtcagtggagtggagatgttttaatacttctgcaattatatcaatgagaatttcttatataccctgcgtgcattaaggtaaagggaaattagaatgttaa...
Basic information
species | Glycine max |
transcript | GLYMA20G35300.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35300.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G04230.1 (Arabidopsis thaliana), 5'ss of exon 5
ATGATGGTCTTTTGGATCTGAGTGATGATGATTTTTTTCTTGCCGGGAGTTCTAGTGACGAAGCAGATGCGGATGATGAATGGACAGACAAAAGTGCAAGgtcagtggagtggagatgttttaatacttctgcaattatatcaatgagaatttcttatataccctgcgtgcattaaggtaaagggaaattagaatgttaa--
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ATGATGCTCTTTTGGACCTGAGTGACGATGACTTCTTTGTCAACGGAAGTTCAAGTGACGAAGCAGATGCGGATGATGAGTGGACTGATAAAAGCACAAAgtacgccttgtaaatgtggattagt--ttctttaatctcaatacttagtgtagtttatcgattgtattagtgtataacatgagagatgaagaagagtcaacg
upper sequence: GLYMA20G35300.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G43720.1 (Arabidopsis thaliana), 5'ss of exon 5
ATGATGGTCTTTTGGATCTGAGTGATGATGATTTTTTTCTTGCCGGGAGTTCTAGTGACGAAGCAGATGCGGATGATGAATGGACAGACAAAAGTGCAAGgtcagtggagtggagatgttttaatacttctgcaattatatcaatgagaatttcttatataccctgcgtgcattaaggtaaagggaaattagaatgttaa-
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ATGATGGTCTTCTGGACCTTAGTGATGATGATTTCTTTGATAAAGGGAGTTCAAGCGATGAAGCAGACGCAGATGATGAATTGACTGATAAAAGCGCAAAgtaggtgaaatgtgga-------atactttcttttagacgtcaat----acttttaattgaagctttctg-atacagagaatttctgactatatttcttag
upper sequence: GLYMA20G35300.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv05s0020g04640.t01 (Vitis vinifera), 5'ss of exon 5
ATGATGGTCTTTTGGATCTGAGTGATGATGATTTTTTTCTTGCCGGGAGTTCTAGTGACGAAGCAGATGCGGATGATGAATGGACAGACAAAAGTGCAAGgt---cagtggagtggagatgttttaata--cttctgcaattatatcaatgagaatttcttatataccctgcgtgcattaaggtaaagggaaattagaatgttaa
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ATGATGGGCTTTTGGATCTGAGTGAGGATGATTTTTTCTTAAGTGGAAGCTCTAGTGATGAAGCAGATGCTGATGATGAATGGACTGATAAAAGTACAAGgtacacatttcattgggaagggagatgcagctttctgactttatttctattgaaagtgctaattttctttagttccacagatg-gaatccaagttccctca----
upper sequence: GLYMA20G35300.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S1_136V6.1 (Physcomitrella patens), 5'ss of exon 6
ATGATGGTCTTTTGGATCTGAGTGATGATGATTTTTTTCTTGCCGGGAGTTCTAGTGACGAAGCAGATGCGGATGATGAATGGACAGACAAAAGTGCAAGgtcag-------tggagtggagatgttttaatacttctgca--attatatcaatgagaatttcttatataccctgcgtgcattaaggtaaagggaaattagaatgttaa
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AGGATGACGTTGGAGACATGAGTGAAGACGATTTTTTCATGGCAGGTTCATCCAGTGACGATGCTGATGCGGATGATGAATGGACAGATAAGAGTCCCAGgtacgattcctctgtttcagctttgttctgtggccttcgaatgagctgatcataccgaatgtttcaaaaaacctgagtcc-ttcaagtattgtgtagacat--------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|254342793|gb|GR858955.1|GR858955EST: TCTAGTGACGAAGCAGATGCGGATGATGAATGGACAGACAAAAGTGCAAG AGAGCAGGCTTCTAGTGCTTCTGGGAAAGGTGTGTCTGGCATGTCCAGTGA
genomic: TCTAGTGACGAAGCAGATGCGGATGATGAATGGACAGACAAAAGTGCAAGgtcagtggag ... ttggttgcagAGAGCAGGCTTCTAGTGCTTCTGGGAAAGGTGTGTCTGGCATGTCCAGTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGATGGTCTTTTGGATCTGAGTGATGATGATTTTTTTCTTGCCGGGAGTTCTAGTGACGAAGCAGATGCGGATGATGAATGGACAGACAAAAGTGCAAGgtcagtggagtggagatgttttaatacttctgcaattatatcaatgagaatttcttatataccctgcgtgcattaaggtaaagggaaattagaatgttaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggagtgg