Sequence
atgc intronic sequence ATGC exonic sequenceAAATAAAAGCCTGGTTATACGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTACAATGCTTTACAGTGCTGATGGAAGTAGgtaagaaggatttgggtgcggataagtatttaagtttcatgttcaatggataattgaatttgagatgtattaaataaaaccgtattaacatgtcttcctatttatcattatttctatag
Basic information
species | Glycine max |
transcript | GLYMA03G39290.1 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G39290.1 (Glycine max), 5'ss of exon 15
lower sequence: LOC_Os01g15020.2 (Oryza sativa), 5'ss of exon 14
AAATAAAAGCCTGGTTATACGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTACAATGCTTTACAGTGCTGATGGAAGTAGgtaag--aaggatttgggtgcggataagtatttaagtttcatgttcaatggataattgaatttgagatgtattaaataaaaccgtattaacatgtcttcctatttatcattatttctatag
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AAATTAAGGCATGGCTTTATGATCATATGGGATCCAGGGTAGATTATGATGCTCCAGGAAAATGGTGTACTACTATGCTTTATAGCGCTGATGGAACTAGgtaagcagaggtattactttcgtaccgaaagttgtctttagttattgttgttgtactaatttacttgtttttcatatgaag----------------------------------------
upper sequence: GLYMA03G39290.1 (Glycine max), 5'ss of exon 15
lower sequence: GRMZM2G316967_T01 (Zea mays), 5'ss of exon 14
AAATAAAAGCCTGGTTATACGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTACAATGCTTTACAGTGCTGATGGAAGTAGgtaagaaggatttgggtgcggataagtatttaagtttcatgttcaatggataattgaatttgagatgtattaaataaaaccgtattaacatgtcttcctatttatcattatttctatag
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AAATTAAGGCCTGGCTTTATGACAATATGGGATCTAGGGTGGACTACGATGCTCCTGGCAAGTGGTGTACTACTATGCTATATAGTGCTGATGGAACTAGgtaagaatagttaggttggc--------tcttatttttatcaccaaagttagttctagttttcaatttttactgaggaaacaatttgccttttcttcatgtgaag--------------
upper sequence: GLYMA03G39290.1 (Glycine max), 5'ss of exon 15
lower sequence: AT5G27030.2 (Arabidopsis thaliana), 5'ss of exon 13
AAATAAAAGCCTGGTTATACGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTACAATGCTTTACAGTGCTGATGGAAGTAGgtaagaa---ggatttgggtgcggataagtatttaa----gtttcatgttcaatggataatt-----gaatttgagatgtattaaataaaaccg-----tattaacatgtcttccta----tttatcattatttctatag-----------------------------------------------
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AAATAAAAGCCTGGCTTTATGATAATCTGGGTTCCAGAGTTGACTATGATGCTCCCGGTAAATGGTGTACGAGGATGCTTTACAGTGCTGATGGTACTAGgtaagatcttaaactcataaacatttccctcttctataccgcttgttcttcactcctcagtttccaaaatcttcagattcttttgtttactccggaggatactgagttgtgtccttgagtttctaatcttatctttctgttttaagtttaccttttcagtgctttctgatgttttttcccccttcag
upper sequence: GLYMA03G39290.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 14
AAATAAAAGCCTGGTTATACGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTACAATGCTTTACAGTGCTGATGGAAGTAGgtaaga------------aggatttgggtgcggataag----tatttaagtttcat----gttcaatggataattgaatttgagatgtatta--aataaaaccgtattaacatgtcttcctat-ttatcattatttctatag----------------------------------------------------------
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AAATTAAAGCCTGGTTGTATGACAACATTGGGTCCAGAGTTGACTATGATGCTCCTGGGCTATGGTGCACTACAATGCTTTACAGTGCTGATGGAAGTAGgtaagattggtgaaattcacaattccagacctaataaaattttattttatttttctttttgctcaatttaaaatttcaacttttctgtaatgttgttatagttgtcttttcataccatactgtgctacttttgatcaaatatatctgacagaacatttgtaactaatttgtgactttttttttcctcttcttcttttcag
upper sequence: GLYMA03G39290.1 (Glycine max), 5'ss of exon 15
lower sequence: PP1S99_260V6.1 (Physcomitrella patens), 5'ss of exon 14
AAATAAAAGCCTGGTTATACGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTACAATGCTTTACAGTGCTGATGGAAGTAGgtaagaaggatttgggtgcggataagtatttaagtttcatgttcaatggataattgaatttg--agatgtattaaataaaaccgtattaacatgtcttcctatttatcattatttctatag
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AGATAAAAGCCTGGCTCTATGATCTTCTTGGTTCTAGAGTTGACTATGATGCACCAGGGCATTGGTGCACTACAATGGCTTACAGTGCTGATGGCACTAGgtatgtagaaccttgattcgcct---tttatacgtgtcaaagt---tgtttggtttaattcactaaatgctccatctaaaatgg-atgtttgtggttgcc-atctgga-------------
upper sequence: GLYMA03G39290.1 (Glycine max), 5'ss of exon 15
lower sequence: PP1S316_34V6.1 (Physcomitrella patens), 5'ss of exon 14
AAATAAAAGCCTGGTTATACGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTACAATGCTTTACAGTGCTGATGGAAGTAGgtaagaaggatttgggtgcggataagtatttaagtttcatgttcaatggataattgaatttgagatgtattaaataaaaccgtattaacatgtcttcctatttatcattatttctatag
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AGATAAAAGCTTGGCTCTATGATCTCCTTGGATCTAGAGTTGACTACGATGCACCTGGTCATTGGTGCACTACAATGGCTTACAGTGCTGACGGCACTAGgtattccaaactttaatc----tcctttcttacgttttgaagttatttggtgtgcacaact-aaacgctctatccaagatca-atgtgcgtggttttct-tgtagca------------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|9204391|gb|BE330615.1|BE330615EST: GCCCCAGGTCATTGGTGTACTACAATGCTTTACAGTGCTGATGGAAGTAG ACTGTTTTCTTGCGGAACTAGTAAAGATGGAGAGTCATTTCT
genomic: GCCCCAGGTCATTGGTGTACTACAATGCTTTACAGTGCTGATGGAAGTAGgtaagaagga ... atttctatagACTGTTTTCTTGCGGAACTAGTAAAGATGGAGAGTCATTTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATAAAAGCCTGGTTATACGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTACAATGCTTTACAGTGCTGATGGAAGTAGgtaagaaggatttgggtgcggataagtatttaagtttcatgttcaatggataattgaatttgagatgtattaaataaaaccgtattaacatgtcttcctatttatcattatttctatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG