Sequence
atgc intronic sequence ATGC exonic sequence...tttaaatttgttatggctcgtgcatagcatatgaagattgagaagatgttttatctggcaatgctttttctgtgtgtgtaaaccttgacctggttactagAGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G35580.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G163081_T04 (Zea mays), 3'ss of exon 3
tttaaatttgttatggctcgtgca--tagcatatgaagattgagaagatgtttt-atctggcaatgctttttctgtgtgtgtaaaccttgacctggttactagAGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTG
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--gtatcctttgattatttgaccatctggtttctacctattgctatggtactttgagctccagaagcatatattgtatctcttaac-tagat---attcttagACCAACAAGGACATCACTGCCCAAATCATATCTGCTAGTATAGCGGGTGATATGGTTCTTGCTTCTGCCTACTCGCATGAGTTGCCACGATATGGTCTTG
upper sequence: GLYMA13G35580.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G815894_T03 (Zea mays), 3'ss of exon 3
----------------------tttaaatttgttatggctcgtgca--tagcatatgaagattgagaagatgttttatctggcaatgcttt--ttctgtgtgtgtaaaccttgacctggttactagAGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTG
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gtatcctttgattccttcatcatttgttttctttgttctttaatcatctggtttctgcttattactatggtacttgagctc-cagtggcataatattgtacctcttaac-tagacctcctta---gACCAACAAGGACATCACAGCACAAATCATCTCTGCTAGTATAGCAGGTGATATGGTTCTTGCTTCTGCTTACTCGCATGAGTTGCCACGATATGGTCTTG
upper sequence: GLYMA13G35580.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0094g00870.t01 (Vitis vinifera), 3'ss of exon 3
tttaaatttgttatggctcgtgcatagcatatgaagattga-gaagatgttttatctggcaatgctttttctgtgtgtgt-aaaccttgacctggttactagAGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTG
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-ctgggttacttttttccctctttcaatg-atgagctttgttgtttgttatctgccaagcattctgtgctgttgatctttgaaaccttaaccttgttactagACTAACAAGGATATTATTGCCCAAATAACATCCGCTAGCATTGCTGGTGATATAGTCCTTGCTTCTGCATATTCTCATGAGCTACCTCACTATGGACTTGMapped 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|193513631|gb|FK467861.1|FK467861EST: AGGACAAGAACAAATATAACACTCCGAAATACCGATTTGTGGTTCGCTTT AGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCA
genomic: AGGACAAGAACAAATATAACACTCCGAAATACCGATTTGTGGTTCGCTTTgtatcctttt ... tggttactagAGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCA
EST:
gi|6072732|gb|AW102119.1|AW102119EST: AGGACAAGAACAAATATAACACTCCGAAATACCGATTTGTGGTTCGCTTT AGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCATTGCCGGCGAT
genomic: AGGACAAGAACAAATATAACACTCCGAAATACCGATTTGTGGTTCGCTTTgtatcctttt ... tggttactagAGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCATTGCCGGCGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttttatctggcaatgctttttctgtgtgtgtaaaccttgacctggttactagAGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTG
aaccttgac putative branch site
tttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaaatttgttatggctcgtgcatagcatatgaagattgagaagatgttttatctggcaatgctttttctgtgtgtgtaaaccttgacctggttactagAGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCATTGCCGGCGATTTAGTTCTTGCTACAGCATATTCACATGAGCTGCCACGATATGGTCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - tgttatg
- - - - - - - - ctcgtgc
- - - - - - - - - - - - - gcatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttgac