Sequence
atgc intronic sequence ATGC exonic sequenceCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGCACTCCTCCTGgtaaatacttttcctaaatatataaatcatattgaatccttatctgtttagtttgtttacaaattattattaattgttaaattgcaaattggttattcttgcag
Basic information
species | Glycine max |
transcript | GLYMA12G10520.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G10520.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 11
CACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGCACTCCTCCTGgtaaatacttttccta--aatatataaatcatattgaatccttatctgtttagtttgtt-tacaaatt--attattaattgttaaattgcaaattggttattcttgcag--------------
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CACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTTTATTGGATTAGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTGgtaagctccctacctcctatcttgcatttattatctgaagcttctcttcatacctagcaataccaaccggacgaacaacgtaaacatttgaaccgagtcacattttcgtgtcgtcgatcacag
upper sequence: GLYMA12G10520.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os06g46570.1 (Oryza sativa), 5'ss of exon 10
CACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGCACTCCTCCTGgtaaatacttttcctaaatatataaatcatattgaatccttat--ctgtttagtttgtttacaaattattattaattgtt--aaattgcaaatt---ggttat-tcttgcag------------------------------------------------------------------------------------
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CATAAGTACATCAATGAGGATGTGTCTTTGGGAGCCTGGTTCATAGGATTAGATGTTGAGCATATTGATGAGCGCCGACTTTGTTGTGGTACTCCACCTGgtaagc---ctacgttattttgcaatctctctcggttcagaatggttgcctggtttacttgaggatttacattacttgctctaaagtctgaacccaaagctatatttcataacagcactgataaaacccgcctatacttcacgcattactgttcttgtgcgcaactaatttgaagccatatgtctctcggtcacag
upper sequence: GLYMA12G10520.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G132866_T02 (Zea mays), 5'ss of exon 9
CACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGCACTCCTCCTGgtaaatacttttcctaaatatataaatcatattga---atccttatctgtttagt--ttgtttacaaat---tattatt--aattgttaaattgcaaattggttat----tcttgcag---------------------------------------------------------
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CACAAGTACATAAACGAAGACGTTTCGTTAGGATCTTGGTTCATCGGGCTAGATGTTGAGCATATCGATGACCGGAGGCTTTGCTGTGGCACTCCGCCTGgtgagt-tttttcatcacttcatgcccctgactgacaaactcaagcttgtttgttcatcattcacgaggccgcgccatttgaattgctcttctgaaacatggctttgggaacctgctgctgaacaatgccaactatttttcatggagcctcatcttatgacgcctttaaccacag
upper sequence: GLYMA12G10520.1 (Glycine max), 5'ss of exon 10
lower sequence: AT2G32430.1 (Arabidopsis thaliana), 5'ss of exon 10
CACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGCACTCCTCCTGgtaaatacttttcctaaatatataaatcatattgaat---ccttatctgttta--gtttgtttacaaattattattaattgttaaattgca--------aattggttattcttgcag---------------------------------------------------------------------------
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CACAAATATGCAAATGAGGATGTTACATTAGGTGCTTGGTTTATCGGGCTTGATGTGACACATATCGATGATAGAAGACTATGTTGTGGCACTCCTCCTGgtaccttcctt-caaatatctatagactcagttcaatacatcttagatgattgtgaagtggtaaaaggttaaacttagttagttctatgcacctaactagaatgtttttttttaaaacaaaccttaaccagaatctggatgtaaatggtaatcatatgatatacactaaatatgattcttggtgaattgcag
upper sequence: GLYMA12G10520.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 5'ss of exon 10
CACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGCACTCCTCCTGgtaaatacttttcctaaatatataaatcatattgaatccttatct--gtttagt----ttgtttacaaattattattaattgttaaattgcaaattggttattcttgcag
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CACAAGTATGCTAATGAGGACGTTTCACTGGGTTCTTGGTTTATTGGTCTTGATGCGGAACATATTGATGATCGGAGATTATGTTGTGGCACCCCACCTGgtaaacttttaaaactattgaaaatttgaagttgaactgtcctcccagtatagtgttattgcttcaagaaaatgcgtatttctgcaactgtttctcggtt----------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|13181561|gb|BG352901.1|BG352901EST: TGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGCACTCCTCCTG ATTGTGAGTGGAAGGCACAAGCTGGAAACATTTGTGTTGCATCATTTGATT
genomic: TGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGCACTCCTCCTGgtaaatactt ... attcttgcagATTGTGAGTGGAAGGCACAAGCTGGAAACATTTGTGTTGCATCATTTGATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGCACTCCTCCTGgtaaatacttttcctaaatatataaatcatattgaatccttatctgtttagtttgtttacaaattattattaattgttaaattgcaaattggttattcttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC