Sequence
atgc intronic sequence ATGC exonic sequencegtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaacatcgatgtcccagAGGGTGCAAGGGCTGCCCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAACTGCCATTGCACCAGTCAAAGAAACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 4
gtaatatatccatatccaaccatgtttcagttt-gcttactctgtgtaatggatctactgtttatcgggtga-aaacatcgatgtcccagAGGGTGCAAGGGCTGCCCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAA-CTGCCATTGCACCAGTCAAAGAAACA
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-----------gtaagtggtcgagtgataattaagcatatact------tagatcaatagtcaattggttaataaactgctctgctgcagAGAGTGCAAGGGCTGCTCTAAATTTGTCGGGAACCGTGCTTGGATATTATCCTGTCAGGGTGCTGCCATCAAAAACTGCGATTGCACCTGTTAACCCAAC-
upper sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA04G40760.1 (Glycine max), 3'ss of exon 6
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaacatcgatgtcccagAGGGTGCAAGGGCTGCCCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTC-AAAACTGCCATTGCACCAGTCAAAGAAACA
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gtaacatgacca---ccaaatgt-ttgcaactttgtaattgt---tattgacatttctctgtat----taacagtgttgtgcttgcagATGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTACTACCTTCGAAAACTGCTATTGCCCCTGTTAATCCAAC-
upper sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaacatcgatgtcccagAGGGTGCAAGGGCTGCCCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAA-CTGCCATTGCACCAGTCAAAGAAACA
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gtaacatgaccg---ccaa--atgtatgcatctttgtgattattattaacatttcactgtat------taacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC-
upper sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaacatcgatgtcccagAGGGTGCAAGGGCTGCCCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAA-CTGCCATTGCACCAGTCAAAGAAACA
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gtaacatgaccg---ccaa--atgtatgcatctttgtgattattattaacatttcactgtat------taacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttactctgtgtaatggatctactgtttatcgggtgaaaacatcgatgtcccagAGGGTGCAAGGGCTGCCCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAACTGCCATTGCACCAGTCAAAGAAACA
tgcttac putative branch site (score: 2)
tgtttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaacatcgatgtcccagAGGGTGCAAGGGCTGCCCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAACTGCCATTGCACCAGTCAAAGAAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA