Sequence
atgc intronic sequence ATGC exonic sequence...ctcttataacatattttttgcatagtatagatgtagtaggcaaatattttgttttaggcccttttattgtatcataaagtgtgtgatgccacacttgtagGAACGTTGCCCTGCTTATTTTTGATACCTGGCCTATTCTTCATTCCGGAATCTCCAAGATGGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G077546_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g49260.1 (Oryza sativa), 3'ss of exon 6
-------------------------------------------------------------------------------ctcttataacatattttttgcatagtatagatgtagtaggcaaatattttgttttaggcccttttattgtatcataaagtgtgtgatgccacacttgtagGAACGTTGCCCTGCTTATTTTTGATACCTGGCCTATTCTTCATTCCGGAATCTCCAAGATGGCTG
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gtacaaatcaatacctgatgtctgaatgttttctatttagggatatgtaataaataataatgaatttttaacttttgatatttgctagtaccttttggacttattgcaattt--gtatgtgcgttaaatgtctggtacctctgattctgattcaaatatctgggttgccatgcttgtagGAAGCATCCCATGTACATTGTTAATACCTGGTCTATTCTTCATTCCGGAATCCCCAAGATGGCTG
upper sequence: GRMZM2G077546_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g49270.1 (Oryza sativa), 3'ss of exon 6
ctcttataacatattttttg--catagtatagatgtagtaggcaaatat-tttgttttaggcccttttattgtatcataaagtgtgtgatgccacacttgtagGAACGTTGCCCTGCTTATTTTTGATACCTGGCCTATTCTTCATTCCGGAATCTCCAAGATGGCTG
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tttttttcacaagtattaaagtaatagtttggatgtcatatatgcgtctactaggagtaaatggtttttttat-tca-aatctgtgttttttt-tgcatgtagGAATCTTGCCTTGCACTGTGTTGATACCTGGCCTATTCTTCATTCCAGAATCCCCAAGATGGTTG
upper sequence: GRMZM2G077546_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 7
ctcttataacatattttttgcatagtatagatgtagtagg-caaat--attttgttttaggcccttttattgtatcataaagtgtgtgatgccacacttgtagGAACGTTGCCCTGCTTATTTTTGATACCTGGCCTATTCTTCATTCCGGAATCTCCAAGATGGCTG
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-tgttgggacttgggaagggt-taaagcccatgcaatgcttcaaatcaactaaagaataaagaattacatt-tgttgacctctatgtccttgctctcttgcagGAATTTTACCCTGTACAATATTGATACCTGGCCTATTTTTCATTCCCGAGTCCCCTAGATGGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgttttaggcccttttattgtatcataaagtgtgtgatgccacacttgtagGAACGTTGCCCTGCTTATTTTTGATACCTGGCCTATTCTTCATTCCGGAATCTCCAAGATGGCTG
ttttattgtatcataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcttataacatattttttgcatagtatagatgtagtaggcaaatattttgttttaggcccttttattgtatcataaagtgtgtgatgccacacttgtagGAACGTTGCCCTGCTTATTTTTGATACCTGGCCTATTCTTCATTCCGGAATCTCCAAGATGGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG