Sequence
atgc intronic sequence ATGC exonic sequenceGCTTTCTACAATTGGGCTATAGCAATTTCTGATCGGGCAAAGATGCGTGGCCGCACAAAGGAAGCTGAAGAGCTATGGAAGCTGgtcagtaaaaataaatgctgccttttattaatggtttcatgcatattttggatagtgctttataaagaattgaattcatactgaacttgaatggaagaaattttcacatttttggttatagttgtcaagtgttggttgatagagatcatcacacactctattttttgttgaatttaaccttttttttcccccag
Basic information
species | Glycine max |
transcript | GLYMA20G35990.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35990.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os10g37430.1 (Oryza sativa), 5'ss of exon 5
GCTTTCTACAATTGGGCTATAGCAATTTCTGATCGGGCAAAGATGCGTGGCCGCACAAAGGAAGCTGAAGAGCTATGGAAGCTGgtcag--taaaa-----ataaatgc-tgccttttattaatggtttcatgc-atattttggatagtgctttataaagaattgaattcatactgaacttgaatggaagaaattttcacatttttggttatagttgtcaagtgttggttgatagagatcatcacacactctattttttgttgaatttaaccttttttttcccccag
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GCATATTATAACTGGGCTATTGCTATTGCTGATCGGGCTAAAATGCGAGGTCGTACTAAAGAAGCTGAAGAGCTCTGGAAGCAGgtttacttacaagcctcacacatgtacatgctttgttaaaatgtttatgctatatatcttgttgctccctgttatcagtataatgtttattcatctagtg-------------------------------------------------------------------------------------------------------
upper sequence: GLYMA20G35990.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G41950.1 (Arabidopsis thaliana), 5'ss of exon 5
GCTTTCTACAATTGGGCTATAGCAATTTCTGATCGGGCAAAGATGCGTGGCCGCACAAAGGAAGCTGAAGAGCTATGGAAGCTGgtcagtaaaaataaatgctgcc----ttttattaatggtttcatgcatattttggatagtgct-ttataaagaattgaattcatactg-aacttgaatggaagaaattttcacatttttggttatagttgtcaagtgttggttgatagagatcatcacacactctattttttgttgaatttaaccttttttttcccccag
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GCTTACTACAACTGGGCTATTGCAATCTCTGATAGAGCAAAGATACGTGGTCGCACAAAGGAAGCTGAAGAACTATGGGAACAAgtaagtagctttgcatgttatgaggactgacctgaccttatcctgctaattgtgaaaactaaaattatcgtagtttgatcttaacttctaattctaaagaagtatgtgtttgacattctgatttcag-------------------------------------------------------------------------
upper sequence: GLYMA20G35990.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv02s0025g02520.t01 (Vitis vinifera), 5'ss of exon 5
GCTTTCTACAATTGGGCTATAGCAATTTCTGATCGGGCAAAGATGCGTGGCCGCACAAAGGAAGCTGAAGAGCTATGGAAGCTGgtcagtaaaaataaatgctgccttttattaatggtttcatgcatattttggatagtgctttataaagaattgaattcatactgaacttgaatggaagaaattttcacatttttggttatagttgtcaagtgttggttgatagagatcatcacacactctattttttgttgaatttaaccttttttttcccccag
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GCTTTTTATAATTGGGCTATAGCAATATCTGATCGGGCAAAAATGCGGGGTCGTACTAAGGAGGCTGAAGAATTATGGAAGCAGgtt--tgacccaaattacttttctttctctagtaatactggattctttatgtccttagattttaaatgtctttggttgtcatgtggctatatgctcaaatgc--------------------------------------------------------------------------------------------
upper sequence: GLYMA20G35990.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S230_71V6.1 (Physcomitrella patens), 5'ss of exon 5
GCTTTCTACAATTGGGCTATAGCAATTTCTGATCGGGCAAAGATGCGTGGCCGCACAAAGGAAGCTGAAGAGCTATGGAAGCTGgtcagtaaaaataaatgctgccttttattaatggtttcatgcatattttggatagtgctttataaagaattgaattcatactgaacttgaatggaagaaattttcacatttttggttatagttgtcaagtgt-tggttgatagagatcatcacacactctattttttgttgaatttaaccttttttttcccccag
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GCTTATTACAATTGGGCCATAGCAATATCCGATCGTGCTAAGATTAGGGGCCGCACCAAGGAAGCCGAAGACCTCTGGAAACAGgtttgtaattaaatcctttgtgcatgaattattattatttgaagacattcagtagt-ccttacgta-atttgtatccgctcgtgaagtacat--aattggttcttgtgtttttatcatgtattttcagttgtgtcattacttgagat-acagcctaatatctggtttgttg--tttag-----------------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|15814226|gb|BI786501.1|BI786501EST: GGGCAAAGATGCGTGGCCGCACAAAGGAAGCTGAAGAGCTATGGAAGCTG GCAACACGGAACTATGAAAAAGCAGTTCAACTTAACTGGAACAGTCCTCAG
genomic: GGGCAAAGATGCGTGGCCGCACAAAGGAAGCTGAAGAGCTATGGAAGCTGgtcagtaaaa ... tttcccccagGCAACACGGAACTATGAAAAAGCAGTTCAACTTAACTGGAACAGTCCTCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTTTCTACAATTGGGCTATAGCAATTTCTGATCGGGCAAAGATGCGTGGCCGCACAAAGGAAGCTGAAGAGCTATGGAAGCTGgtcagtaaaaataaatgctgccttttattaatggtttcatgcatattttggatagtgctttataaagaattgaattcatactgaacttgaatggaagaaattttcacatttttggttatagttgtcaagtgttggttgatagagatcatcacacactctattttttgttgaatttaaccttttttttcccccag
- - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG