Sequence
atgc intronic sequence ATGC exonic sequenceTGTGAGTCAATGGTCTGCTGGAACAAGTCAAACCGAAGAGAGCATCCACAATGCTTATTGCTCTCTTATTGAGAAAGCTGAATACTTCATCTACATTGAGgtattaaataaacttcctccttgtatctccgttgaattacaattttttgaagattgatggttttgcagatgattataccaaaagtggttttaccttgtta...
Basic information
species | Glycine max |
transcript | GLYMA09G04620.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G04620.1 (Glycine max), 5'ss of exon 13
lower sequence: LOC_Os05g29050.1 (Oryza sativa), 5'ss of exon 12
TGTGAGTCAATGGTCTGCTGGAACAAGTCAAACCGAAGAGAGCATCCACAATGCTTATTGCTCTCTTATTGAGAAAGCTGAATACTTCATCTACATTGAGgtattaaataaacttcctccttgtatctccg----ttgaattacaattttttgaagattgat-ggttttgc-agatgattataccaaaagtggttttaccttgtta
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TGTTGGTCAATGGTCAGCTGGAACCACTCAAATCGAAGGAAGCATCCACAATGCCTATTTTTCTCTTATTGAAAAGGCAGAACATTTTGTATATATCGAGgtccgcgttttgcatttattttaaacatcaaaaattcaatttctaaacaatagtagattagtaggttttactagataatgatctttaaataatgttcagt------
upper sequence: GLYMA09G04620.1 (Glycine max), 5'ss of exon 13
lower sequence: GRMZM2G066485_T01 (Zea mays), 5'ss of exon 12
TGTGAGTCAATGGTCTGCTGGAACAAGTCAAACCGAAGAGAGCATCCACAATGCTTATTGCTCTCTTATTGAGAAAGCTGAATACTTCATCTACATTGAGgtattaaataaacttcctccttgtatctccgttgaattacaattttttgaagattgatggttttgcagatgattataccaaaagtggttttaccttg--tta-----
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TGTCGGTCAATGGTCAGCTGGGACCACTCAAATTGAAGGAAGCATCCACAATGCCTACTTTTCTCTGATTGAGAAGGCAGAACACTTCGTATACATTGAGgttt-----gtgcctttttctttgacctt--ttagatttgagttcttaacttcagtatttttttacggataatgatctgaaactggagttttccatgcattattcta
upper sequence: GLYMA09G04620.1 (Glycine max), 5'ss of exon 13
lower sequence: AT3G16785.1 (Arabidopsis thaliana), 5'ss of exon 13
TGTGAGTCAATGGTCTGCTGGAACAAGTCAAACCGAAGAGAGCATCCACAATGCTTATTGCTCTCTTATTGAGAAAGCTGAATACTTCATCTACATTGAGgtattaaataaacttcctccttgtatctccgttgaattacaattttttgaagattga---tggttttgcagatgattataccaaaagt-ggttttaccttgtta-
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TGTCAGTCAGTGGTCTGCCGGTACAAGCCAAGTTGAAGAGAGTATCCATTCTGCTTACCGTTCTCTCATTGACAAAGCTGAACATTTTATCTACATTGAGgtatttgctataacatgtgtttgt-----cgtggaatctcggttttgcatgagttcaatttgatagaccaagtaattagagcatcatttagcgtttcattgaaac
upper sequence: GLYMA09G04620.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv05s0077g01830.t01 (Vitis vinifera), 5'ss of exon 14
TGTGAGTCAATGGTCTGCTGGAACAAGTCAAACCGAAGAGAGCATCCACAATGCTTATTGCTCTCTTATTGAGAAAGCTGAATACTTCATCTACATTGAGgtattaaataaacttcctccttgtatctccgttgaattacaattttttgaa-------gattgatggttttgcagatgattataccaaaagtggttttaccttgtta
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CGTCAGTCAGTGGTCTGCTGGAACAAGCCAAGTTGAAGACAGCACTCATAATGCTTATTGCTCCCTTATAGAAAAGGCAGAACACTTTATATATATTGAGgtatagaatgagatgagctttttcatctttaatgaatgattagttgacaaccatatgcgatggatgttttttttttttttttttgcacttgtagaaatat-------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|208056266|gb|GD852489.1|GD852489EST: CTTATTGAGAAAGCTGAATACTTCATCTACATTGAG AATCAATTTTTTATCTCAGGTCTTTCTGGAGATGAGATGATACGGAATCGT
genomic: CTTATTGAGAAAGCTGAATACTTCATCTACATTGAGgtattaaata ... tatattccagAATCAATTTTTTATCTCAGGTCTTTCTGGAGATGAGATGATACGGAATCGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGAGTCAATGGTCTGCTGGAACAAGTCAAACCGAAGAGAGCATCCACAATGCTTATTGCTCTCTTATTGAGAAAGCTGAATACTTCATCTACATTGAGgtattaaataaacttcctccttgtatctccgttgaattacaattttttgaagattgatggttttgcagatgattataccaaaagtggttttaccttgtta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcctcc