Sequence
atgc intronic sequence ATGC exonic sequenceGACTACAGATTCTAGCACTAGCATTACTTATCTTCCAGAACCACATGAAGATGAAATACAATTTATATTGGATGCCATCTCTGATTACCTTAATGTTAAAgtatgttattcctgccaatatagcttactatttttacacgttttttccccccttatattttctgaagaattggtgtggagagaacacaatgatgatgttt...
Basic information
species | Glycine max |
transcript | GLYMA20G32390.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G32390.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os04g14790.1 (Oryza sativa), 5'ss of exon 3
GACTACAGATTCTAGCACTAGCATTACTTAT-CTTCCAGAACCACATGAAGATGAAATACAATTTATATTGGATGCCATCTCTGATTACCTTAATGTTAAAgtatgt-tattcctgccaatatagcttactatttttacacgttttttccccccttatattttctgaagaattggtgtggagagaacacaatga---tgatgttt
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TACAACCGACTCTAGTAC-AGCAATAACAATGCTTCCTGAACCACATGAGGATGAGATACAGTTCATATTAGATGCTATCTGTGATTATCTTAACGTTCAGgtttgtgtgtttgcatttatgtaatgtacagtaatt---tatttgacgctgtcgaaaaaaaatagtaaagtttttctttctgaaatatagtgtttttcatgtt-
upper sequence: GLYMA20G32390.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G446108_T03 (Zea mays), 5'ss of exon 3
GACTACAGATTCTAGCACTAGCATTACTTAT-CTTCCAGAACCACATGAAGATGAAATACAATTTATATTGGATGCCATCTCTGATTACCTTAATGTTAAAgtatgttattcctgccaatatagcttactatttttacacgttttt-tccccccttatattttctgaagaattggtgtggaga---gaacacaatgatgatgttt-
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AACAACTGATTCTAACAC-AGCAATAACAATGCTTCCTGAACCACACGAGGATGAAATACAGTTCATATTGGATGCAATCTCTGACTATCTTAATGTTCAGgtgtgtt-----tgcatatatgcaatcctttttccacatgctgaaataatgtcgtaaagttcttatgctattgtagtgttgtttcacatattttcatcttgtatt
upper sequence: GLYMA20G32390.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G10370.1 (Arabidopsis thaliana), 5'ss of exon 3
GACTACAGATTCTAGCACTAGCATTACTTATCTTCCAGAACCACATGAAGATGAAATACAATTTATATTGGATGCCATCTCTGATTACCTTAATGTTAAAgtatgttattcctgccaatatagcttactatttttacacgttttttccccccttatattttctgaagaattggtgtggagagaacaca-atgatgatgttt------
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CACTACAGACTCTAATACTTCAATCACTTCACTTCCAGAACCTCATGAAGATGAGATTCAATTTATACTGGACGCAATCAGCGACTATCTTAACATTAAGgta---tatccagattcagattaatgaggaataatcaattctatttttgacccaatagctctctaacaattcagttgatgatgttatgcatcctaaatcttatatag
upper sequence: GLYMA20G32390.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0019g04730.t01 (Vitis vinifera), 5'ss of exon 3
GACTACAGATTCTAGCACTAGCATTACTTATCTTCCAGAACCACATGAAGATGAAATACAATTTATATTGGATGCCATCTCTGATTACCTTAATGTTAAAgtatgtt-attcctgccaatatagcttactattttta---cacgttttttccccccttatattttctgaagaattggtgtggagagaacacaatgatgatgttt
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CACTACTGATTCCAACACTAGCATCACAATGCTTCCAGAACCGCATGAGGATGAGATCCAATTTATACTCGATGCTATCAGTGATTACCTTAATGTTAAGgttggttgatttctctaactaaatctcttgatttttattacatgctttatcttactttaggaactatatgctactgtatcatcaagatttttggaattgc----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|7588078|gb|AW703881.1|AW703881EST: GATTACCTTAATGTTAAA GTACGCCGTGTTGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCA
genomic: GATTACCTTAATGTTAAAgtatgttatt ... gcggtggtagGTACGCCGTGTTGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GACTACAGATTCTAGCACTAGCATTACTTATCTTCCAGAACCACATGAAGATGAAATACAATTTATATTGGATGCCATCTCTGATTACCTTAATGTTAAAgtatgttattcctgccaatatagcttactatttttacacgttttttccccccttatattttctgaagaattggtgtggagagaacacaatgatgatgttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgtgg