Sequence
atgc intronic sequence ATGC exonic sequencegtaagttggcacagctgattttaagttttacagcatcacaataaactagcaaagcctgcccttatgttgctgttcacatgggtattttttaaattctaatgttgtaagagaaattttagggtttagctctgtgttgacgttgtatttgtttgtgacaccttttcagTTGAGAGAGTACATCGATGACACGGAAGATTACATCAATATCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G159295_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g53110.1 (Oryza sativa), 3'ss of exon 7
gtaagttggcacagctgattttaagttttacagcatcacaataaactagcaaagcctgcccttatgttgctgttcacatgggtatttt-ttaaattctaatgttgtaagagaaattttagggtttagctctgtgttgacgttgtatttgtttgtgacaccttttcagTTGAGAGAGTACATCGATGACACGGAAGATTACATCAATATCCAG
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gtaagttgaggcagctaagtcgaa--tttacaatatcaaaatgggctagcaaaacatggcctaaggcttttgtttacaacacaacatcgttgaaaattaatagt---------actctaggctttcaccctttgctgac--tgtatttgtctgctatactgtttcagCTGAGAGAGTACATTGATGACACAGAAGATTACATTAATATCCAG
upper sequence: GRMZM2G159295_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA03G31600.1 (Glycine max), 3'ss of exon 7
gtaagttggcacagctgattttaagttttacagcatcacaataaactagcaaagcctgcccttatgttgctgttcacatgggtattttttaaattctaatgttgtaagagaaattt-tagggtttagctctgtgttgacgttgtatttgtttgtgacaccttttcagTTGAGAGAGTACATCGATGACACGGAAGATTACATCAATATCCAG
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---------------------------------------------------------------------gtatgaactgcattttcttttaatctttcctagtatatttctgttttgtactaattaagtgataaacattgctattttgatacttgccctcatttcagTTGCGAGAATATATCGATGACACAGAAGATTACATCAACATACAG
upper sequence: GRMZM2G159295_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA19G34430.2 (Glycine max), 3'ss of exon 7
gtaagttggcacagctgattttaagttttacagcatcacaataaactagcaaagcctgcccttatgttgctgttcacatgggtattttttaaattctaatgttgtaagagaaattttagggtttagctctgtgttgacgttgtatttgtttgtgacaccttttcagTTGAGAGAGTACATCGATGACACGGAAGATTACATCAATATCCAG
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---------------------------------------------------------------------gtatgaactgcattttcttttaatctttcctactgtatttctg--ttttgtactaagtgataaactt-tgctattttgatactttcccttatttcagTTGCGAGAATATATCGATGACACAGAAGATTACATCAACATACAGMapped 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|88748706|gb|DY532847.1|DY532847EST: GCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACG TTGAGAGAGTACATCGATGACACGGAAGATTACATCAATATCCAG
genomic: GCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACGgtaagttggc ... accttttcagTTGAGAGAGTACATCGATGACACGGAAGATTACATCAATATCCAG
EST:
gi|76291165|gb|DV030733.1|DV030733EST: GCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACG TTGAGAGAGTACATCGATGACACGGAAGATTACATCAATATCCAG
genomic: GCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACGgtaagttggc ... accttttcagTTGAGAGAGTACATCGATGACACGGAAGATTACATCAATATCCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttagggtttagctctgtgttgacgttgtatttgtttgtgacaccttttcagTTGAGAGAGTACATCGATGACACGGAAGATTACATCAATATCCAG
tgttgac putative branch site (score: 3)
caccttttc putative PPT
tatttgttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttggcacagctgattttaagttttacagcatcacaataaactagcaaagcctgcccttatgttgctgttcacatgggtattttttaaattctaatgttgtaagagaaattttagggtttagctctgtgttgacgttgtatttgtttgtgacaccttttcagTTGAGAGAGTACATCGATGACACGGAAGATTACATCAATATCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA