Sequence
atgc intronic sequence ATGC exonic sequenceTGCATCAAAAGAGGCGTGGGATGATTACAATAGATATCTTTCAGACAAGAAAGCAAATGAGAAGGAAGTCTGGGTTGTCAAGAAGGGCATCAAGAAACATgtatgaagcatatttaattttcttgaatatatttatattgtgtttttaaggagttgagaacagaataaccaaacagtaaaaaatgtaaggaagattttaa...
Basic information
species | Glycine max |
transcript | GLYMA12G33340.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G33340.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os04g28460.1 (Oryza sativa), 5'ss of exon 2
------------------------TGCATCAAAAGAGGCGTGGGATGATTACAATAGATATCTTTCAGACAAGAAAGCAAATGAGAAGGAAGTCTGGGTTGTCAAGAAGGGCATCAAGAAACATgtatgaagcatatttaattttcttgaatatatttatattgtgtttttaaggagttgagaacagaataaccaaa-cagtaaaaaatgtaaggaagattttaa
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ACTTGCCATCATCTTCATAGTTTCAGCTTCAAAAGAGGCTTGGGATGATTACAATAGGTACCTTTCAGACAAGAAAGCAAACGGAAGGGAAGTTTTGGTGgtaaaggatggcaaccatagacaggt----------ttttgttttctctgttatattttc--tgttttttaaaaccgtagtgaa-actttgtctaaatctattgtaagtttac------------
upper sequence: GLYMA12G33340.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os11g25980.1 (Oryza sativa), 5'ss of exon 3
TGCATCAAAAGAGGCGTGGGATGATTACAATAGATATCTTTCAGACAAGAAAGCAAATGAGAAGGAAGTCTGGGTTGTCAAGAAGGGCATCAAGAAACATgtatgaa-gcatatttaattttcttgaatatatttatattgtgtttttaaggagttgagaacagaataaccaaacagtaaaaaatgtaaggaagattttaa---
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AGCAACCAAAGAAGCCTGGGATGACTACAATAGGTATATTTCAGACAAGCAAGCAAATGAAAAAGAAGTGTGGATTGTAAAGAATGGTACCCGGAAACATgtacgtttatatggcaatttttcccattcataaaaat-ttgtctttctttggtattgt---ccttgtgttcttatactaaaacatttaatggtatcaatgatat
upper sequence: GLYMA12G33340.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G347447_T01 (Zea mays), 5'ss of exon 2
TGCATCAAAAGAGGCGTGGGATGATTACAATAGATATCTTTCAGACAAGAAAGCAAATGAGAAGGAAGTCTGGGTTGTCAAGAAGGGCATCAAGAAACATgtatgaagcatatttaattttcttgaatatatttatattgtgtttttaaggagttgagaacagaataaccaaacagtaaaaaatgtaaggaagattttaa----
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TGCTTCAAAAGAGGCTTGGGATGATTACAATAGGTATCTTTCTGACAAGAAAGCAAATGAGAGGAAAATATGGTTGGTAAAGGATGGCGTCCGCATACAGgttttt--tttttttcaatttctccatctaatttgctttaactttattgaaaat-atggccttcttgatctatt-gtactccctccattcaaaattataagaca
upper sequence: GLYMA12G33340.1 (Glycine max), 5'ss of exon 2
lower sequence: AT5G44240.1 (Arabidopsis thaliana), 5'ss of exon 3
TGCATCAAAAGAGGCGTGGGATGATTACAATAGATATCTTTCAGACAAGAAAGCAAATGAGAAGGAAGTCTGGGTTGTCAAGAAGGGCATCAAGAAACATgtatgaagcatatttaattttcttgaatatatttatattgtgtttttaaggagttgagaacagaataaccaaacagtaaaaaatgtaaggaagattttaa
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TGCTTCCAAAGAAGCTTGGGATGATTACCACAGATATCTATCAGATAAGAAAGCAAATGAGAAAGAAGTTTGGATCGTGAAACAGGGGATCAAGAAGCATgtatgaatcacttttgcatgattttttcatggcgat----tgatttttaggtggtg---atagtttgtgttaattgt----agtagtatgttgcttgtagMapped 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|208145523|gb|GD940894.1|GD940894EST: AAGCAAATGAGAAGGAAGTCTGGGTTGTCAAGAAGGGCATCAAGAAACAT ATCCAAGCCCAGGATGTTCATGTAGGTAACATAGTATGGCTACGTGAAAAT
genomic: AAGCAAATGAGAAGGAAGTCTGGGTTGTCAAGAAGGGCATCAAGAAACATgtatgaagca ... gatattgcagATCCAAGCCCAGGATGTTCATGTAGGTAACATAGTATGGCTACGTGAAAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCATCAAAAGAGGCGTGGGATGATTACAATAGATATCTTTCAGACAAGAAAGCAAATGAGAAGGAAGTCTGGGTTGTCAAGAAGGGCATCAAGAAACATgtatgaagcatatttaattttcttgaatatatttatattgtgtttttaaggagttgagaacagaataaccaaacagtaaaaaatgtaaggaagattttaa
- - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtaaaaaa