Sequence
atgc intronic sequence ATGC exonic sequence...gtgcaaccatgccaattcacaccactctacttttggttgttatatttgaagttgagctttgaccactccttttccttcttttttggataaaaaattgtagGTATTCAGTGGAAGATACCGGGCCTGTTGCTTGTATATCTTGGACGCCTGACAATTGTGCTTTCGCAGTTGGGTGGAAATTTAGGGGACTTACTGTATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G052750_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g54500.1 (Oryza sativa), 3'ss of exon 4
-------gtgcaaccatgccaattcacaccactctac-ttttggttgttatatttgaagttgagctttgaccactccttttccttcttttttggataaaaaattgtagGTATTCAGTGGAAGATACCGGGCCTGTTGCTTGTATATCTTGGACGCCTGACAATTGTGCTTTCGCAGTTGGGTGGAAATTTAGGGGACTTACTGTATGG
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ttactatgtgtgattttgtgtatttactgtgcaatgcatttcagttattccgtt-aaagctgatatataactgtccctttttcct-----ttggg--aaaaattgtagGTATTCAGTGGAAGATACTGGTCCTGTTACTTGTATATCTTGGACGCCTGACAATTGTGCTTTTGCAGTTGGATGGAAATTTAGGGGACTTACTGTGTGG
upper sequence: GRMZM2G052750_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 5
--gtgcaaccatgccaattcaca--ccactctacttttggttgttatatttgaagttga-gctttgaccactccttttccttcttttttggataaaaaattgtagGTATTCAGTGGAAGATACCGGGCCTGTTGCTTGTATATCTTGGACGCCTGACAATTGTGCTTTCGCAGTTGGGTGGAAATTTAGGGGACTTACTGTATGG
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ttatacgcctttggtagttttcaagttgtcttactgtgatttatttca--tgcccttgatattttggctgcatcgttaataaaactgtt---ttaaaacttgcagTTATTCAGCGGATTACACTGGGCCTGTAAATAACATTGCATGGACGCCTGATAATTCTGCTTTTGCAGTTGGGTGGAAGTCGAGAGGACTTGCAGTTTGG
upper sequence: GRMZM2G052750_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT5G28350.2 (Arabidopsis thaliana), 3'ss of exon 5
--gtgcaaccatgccaattcaca--ccactctacttttggttgttatatttgaagttga-gctttgaccactccttttccttcttttttggataaaaaattgtagGTATTCAGTGGAAGATACCGGGCCTGTTGCTTGTATATCTTGGACGCCTGACAATTGTGCTTTCGCAGTTGGGTGGAAATTTAGGGGACTTACTGTATGG
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ttatacgcccttggtagttttcaagttgtcttactgtgatttatttca--tgcccttgatattttggctgcatcgttaataaaactgtt---ttaaaacttgcagTTATTCAGCGGATTACACTGGGCCTGTAAATAACATTGCATGGACGCCTGATAATTCTGCTTTTGCAGTTGGGTGGAAGTCGAGAGGACTTGCAGTTTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaagttgagctttgaccactccttttccttcttttttggataaaaaattgtagGTATTCAGTGGAAGATACCGGGCCTGTTGCTTGTATATCTTGGACGCCTGACAATTGTGCTTTCGCAGTTGGGTGGAAATTTAGGGGACTTACTGTATGG
ctttgac putative branch site (score: 4)
ttcttttttggataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcaaccatgccaattcacaccactctacttttggttgttatatttgaagttgagctttgaccactccttttccttcttttttggataaaaaattgtagGTATTCAGTGGAAGATACCGGGCCTGTTGCTTGTATATCTTGGACGCCTGACAATTGTGCTTTCGCAGTTGGGTGGAAATTTAGGGGACTTACTGTATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA