Sequence
atgc intronic sequence ATGC exonic sequenceGGCCGCCATCATGGCTCTCGCCGCCGTCATCCGCTCCAGCAGGGCCACCACCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCTGACAAGCTCAAGgttgataacccggccgattcacctgctcggctgctctgtcgttcccgcttgctgtgctagcgtatattctatatttctattattctttgttgatcagcat...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G084647_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os12g31380.1 (Oryza sativa), 5'ss of exon 1
GGCCGCCATCATGGCTCTCGCCGCCGTCATCCGCTCCAGCAGGGCCACCACCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCTGACAAGCTCAAGgttgataacccggccgattcacc--tgctcggctgctc-tgtcgttcccgcttgc-tgtgctagcgtatattctatatttctattattctttgttgatcagcat
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GGCGGCCATCATGGCGCTCGCCGCCGTCATCCGCTCCAGCAGGGCCACCACCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCCGACAAGCTCAAGgt----acccccacctactaaccgattatagaatgttaacagcgttcatacaagggtgcacggattcgtggattagttaccggctccgcaattttgcccacctt
upper sequence: GRMZM2G084647_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA03G42430.1 (Glycine max), 5'ss of exon 1
GGCCGCCATCATGGCTCTCGCCGCCGTCATCCGCTCCAGCAGGGCCACCACCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCTGACAAGCTCAAGgttgataacccggccgattcacctgctcggctgctctgtcgttcccgcttgctgtgctagcgtatattctatatttctattattctttgttgatcagcat
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CGCCGCCATTCGGGCCCTGGCCGCCGTCATAAGGTCCAGCAAGGCTACCACCATGATGCAGCTCGAGATTGAGCTCAAGAAGGCCTCCGATTTTCTCAAGgt-attcactctattgtttc-ttcattcatttccaacgctctctctctctctctctctctgacacattct---tcttcattgctttgcattg--cag---
upper sequence: GRMZM2G084647_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA19G45180.1 (Glycine max), 5'ss of exon 1
GGCCGCCATCATGGCTCTCGCCGCCGTCATCCGCTCCAGCAGGGCCACCACCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCTGACAAGCTCAAGgttgataacccggccgattcacctgctcggctgctctgtcgttcccgcttgctgtgctagcgtatattctatatttctattattctttgttgatcagcat
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CGCCGCCATTCGCGCCCTGGCCGCCGTCATAAGATCCAGCCAGGCTACCACCATGATGCAGCTCGAAATCGAGCTCAAGAAGGCCTCCGATTCTCTCAAAgt----------attggttcaact-ctctctctccctctctctctctctctctg---------atgatttattcttcttcattcctttgcag--------
upper sequence: GRMZM2G084647_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA07G05070.1 (Glycine max), 5'ss of exon 1
GGCCGCCATCATGGCTCTCGCCGCCGTCATCCGCTCCAGCAGGGCCACCACCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCTGACAAGCTCAAGgttgataacccggccgattcacctgctcggctgctctgtcgttcccgcttgctgtgctagcgtatattctatatttctattattctttgttgatcagcat
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GGCCGCCATTCGCGCCTTGGCCGCCGTCATCCGCTCCAGCAAGGCCTCCACCATGATGCAGCTCGAAATCCAACTCAAAAACGCCTCCGATACCCTCAAAgtcagttactaa-------cactaactag--tactttctctctcttgattgtgattattaatttggttgtgttcctgtgttgcgctccacacag------
upper sequence: GRMZM2G084647_T02 (Zea mays), 5'ss of exon 1
lower sequence: Vv09s0002g00390.t01 (Vitis vinifera), 5'ss of exon 4
GGCCGCCATCATGGCTCTCGCCGCCGTCATCCGCTCCAGCAGGGCCACCACCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCTGACAAGCTCAAGgttgataacccggccgattcacctgctcggctgctctgtcgttcccgcttgctgtgctagcgtatattctatatttctattattctttgttgatcagcat-----
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GGCCGCGATTCGCGCTTTGGCGTCGGTGATTCGGTTCAGCCAGGCTACCACCATGATGGAACTGGAGATTGAGCTCAAGAAGGCTTCCGATTCTCTTAAAgtgagtg---ctttctaccgaaatgctggggaattcc-ttgtttgtgttcgtagc-tgggcgtcaattttgtgtttttattcatctttattgataattgaaattc
upper sequence: GRMZM2G084647_T02 (Zea mays), 5'ss of exon 1
lower sequence: EFJ19798 (Selaginella moellendorffii), 5'ss of exon 1
GGCCGCCATCATGGCTCTCGCCGCCGTCATCCGCTCCAGCAGGGCCACCACCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCTGACAAGCTCAAGgttgataacccggccgattcacctgctcggct-gctctgtcgttcccgcttgctgtgctagcgtatattctatatttctattattctttgttgatcagcat
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GGCGGCGATCAAGGCGCTCACGGCGGTCATCCAGCGCAGCCAAGCCAGCACCATGATGGGCCTCGAGATCGAGCTCAAGAACGCCTCCGAGATGCTCAAGgttt----tcttgct--tcctctcgcgtagctcacttcacttagctggatcttcactccag----------------------------------------
upper sequence: GRMZM2G084647_T02 (Zea mays), 5'ss of exon 1
lower sequence: EFJ08630 (Selaginella moellendorffii), 5'ss of exon 1
GGCCGCCATCATGGCTCTCGCCGCCGTCATCCGCTCCAGCAGGGCCACCACCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCTGACAAGCTCAAGgttgataacccggccgattcacctgctcggct-gctctgtcgttcccgcttgctgtgctagcgtatattctatatttctattattctttgttgatcagcat
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GGCGGCGATCAAGGCGCTCACGGCGGTCATCCAGCGCAGCCAAGCCAGCACCATGATGGGCCTCGAGATCGAGCTCAAGAACGCCTCCGAGATGCTCAAGgttt----tcttgct--tcctcccgcgtagctcacttcacttagctggatcttcactccag----------------------------------------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|211260422|gb|FL227455.1|FL227455EST: CCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCTGACAAGCTCAAG TCCTGGGATGCTACATCCATTTCTCTTTCTGCTGCTTGTGATTTGTTCATG
genomic: CCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCTGACAAGCTCAAGgttgataacc ... tgtattccagTCCTGGGATGCTACATCCATTTCTCTTTCTGCTGCTTGTGATTTGTTCATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCCGCCATCATGGCTCTCGCCGCCGTCATCCGCTCCAGCAGGGCCACCACCATGATGGAGCTCGAGATCGAGCTCAAGAAGGCATCTGACAAGCTCAAGgttgataacccggccgattcacctgctcggctgctctgtcgttcccgcttgctgtgctagcgtatattctatatttctattattctttgttgatcagcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA