Sequence
atgc intronic sequence ATGC exonic sequenceCCCACCTAATTCCTGACAAGACTCCCAGGTCCATTTTTGTATACTTCCGAGGACTCTTTTATGATGTTGGCAATGACCCTGAAGGTGGTTACTATGCAAGgtaggtcttattacaagtttaaaggagggggtctgagtgtgtggtcttttatttatttcatattatttcttcataagaaagctgacttgcatcctattac...
Basic information
species | Glycine max |
transcript | GLYMA05G33420.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G33420.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os04g32670.1 (Oryza sativa), 5'ss of exon 3
CCCACCTAATTCCTGACAAGACTCCCAGGTCCATTTTTGTATACTTCCGAGGACTCTTTTATGATGTTGGCAATGACCCTGAAGGTGGTTACTATGCAAGgtaggtcttattacaagtttaaaggagggggtctgagtgtgtggtcttttatttatttcatattatttcttcataagaaagctgacttgcatcctattac
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CTCACTTGATCCCCCCTGACACTCCACGTTCAATCTTCGTCTACTTCCGGGGACTATTCTATGACACTGGAAATGACCCCGAGGGTGGTTACTATGCAAGgttagcaatgtt-----tttaaagtaacagatctgaatttttatccttctg---gttttgtcccatgtactcacttcagtgatgttatacag--------
upper sequence: GLYMA05G33420.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G61840.1 (Arabidopsis thaliana), 5'ss of exon 3
CCCACCTAATTCCTGACAAGACTCCCAGGTCCATTTTTGTATACTTCCGAGGACTCTTTTATGATGTTGGCAATGACCCTGAAGGTGGTTACTATGCAAGgtaggtcttat----tacaagtttaaaggagggggtctgagtgtgtggtcttttatttatttcatattatttcttcataagaaagctgacttgcatcctattac-----------------------------------------------------------------------------------------------
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CACACTTAATTCCCGAAAAAACTCCTCGATCCATCTTCGTTTATTTCAGAGGATTGTTTTATGATGTGGGAAATGACCCTGAGGGTGGTTATTATGCGAGgtaatttttttcttatgaaagttcttagctattgttcataata---aatttcataaatctcctaaaacagttcataattgctttatcggtttggaattttggacataaaactcaaaaaaggaaaatttatcagactgtttttagagccatggattgttcttataatcagtgatgatgtttgtttgtcaaactggcacag
upper sequence: GLYMA05G33420.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv17s0000g00120.t01 (Vitis vinifera), 5'ss of exon 3
CCCACCTAATTCCTGACAAGACTCCCAGGTCCATTTTTGTATACTTCCGAGGACTCTTTTATGATGTTGGCAATGACCCTGAAGGTGGTTACTATGCAAGgtaggtcttattacaagtttaaaggagggggtctgagtgtgtggtcttttatttatttcatattatttctt-cataagaaagctgacttgcatcctattac-
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CCCACTTGATCCCGCCAGACACTCCTAGGTCTATCTTTGTCTACTTCCGAGGATTGTTCTATGATGTAGGAAATGACCCAGAAGGTGGTTATTATGCAAGgtattcctcacaatt--tttatatgttgacattggggtgtttagacatcgaagtgatatgaaatatttttaatgcatgtataaatcctttcaatgggagaga
upper sequence: GLYMA05G33420.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv01s0150g00180.t01 (Vitis vinifera), 5'ss of exon 3
CCCACCTAATTCCTGACAAGACTCCCAGGTCCATTTTTGTATACTTCCGAGGACTCTTTTATGATGTTGGCAATGACCCTGAAGGTGGTTACTATGCAAGgtaggtcttattacaagtttaaaggagggggtctgagtgtgtggtcttttatttatttcatattatttcttcataagaaagc---tgacttgcatcctattac
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CCCACCTAATTCCCCAAGAAACCCCTCGGTCCATCTTCGTTTACTTCCGTGGTTTGTTTTATGATGTGAATAATGACCCTGAAGGTGGTTACTATGCAAGgtatgtgggttagtgttttttttttcctttttcttttcctcttattgagaattgcattgaaatt-tgataccatgggcaattcaataataggggttaggtt--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|13312605|gb|BG406256.1|BG406256EST: GGACTCTTTTATGATGTTGGCAATGACCCTGAAGGTGGTTACTATGCAAG AGGCGCAAGAGCAGCAGTGTGGGAGAACTTTAAGGACAATCTGCTGTTTG
genomic: GGACTCTTTTATGATGTTGGCAATGACCCTGAAGGTGGTTACTATGCAAGgtaggtctta ... aatcttgcagAGGCGCAAGAGCAGCAGTGTGGGAGAACTTTAAGGACAATCTGCTGTTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCCACCTAATTCCTGACAAGACTCCCAGGTCCATTTTTGTATACTTCCGAGGACTCTTTTATGATGTTGGCAATGACCCTGAAGGTGGTTACTATGCAAGgtaggtcttattacaagtttaaaggagggggtctgagtgtgtggtcttttatttatttcatattatttcttcataagaaagctgacttgcatcctattac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaggggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataagaaa