Sequence
atgc intronic sequence ATGC exonic sequence...gagcactggatgcatgctgcatgatccttgcgttttcggtaatttctaaattgccctctctatatcttgctgagtacgtgcttttcttttgcttatgtagTCAGTGTTAGTGAGGTTGAGGCTCTATTCGAGCTGTTCAAGAGCATAAGTGGTTCAGTGATTGACGATGGCCTGATCAACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G015324_T05 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g41510.1 (Oryza sativa), 3'ss of exon 1
--------------------------------gagcactggatgcatgctgcatgatccttgcgtttt---cggtaatt--tctaaattgccctctctata----tcttgctgagtacgtgctt-ttcttttgcttatgtagTCAGTGTTAGTGAGGTTGAGGCTCTATTCGAGCTGTTCAAGAGCATAAGTGGTTCAGTGATTGACGATGGCCTGATCAACAAG
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gtgagttgttgttgctgtacttgccacttgaggagtactctaca-gtactgtatt-tcatttcatttcatcaagtagttcatctgatttatgcaatcgatgggcgtactggaaattctgagttagttgttttggatgtgtagTTAGCGTAAGTGAGGTGGAGGCTTTGTTCGAGCTGTTCAAGAGCATTAGTGGTTCTGTGATCGACGATGGGCTCATCAATAAG
upper sequence: GRMZM2G015324_T05 (Zea mays), 3'ss of exon 1
lower sequence: AT4G17615.1 (Arabidopsis thaliana), 3'ss of exon 2
--gagcactggatgcatgctgcatgatccttgcgttttcggtaatttctaa-attgccctctctatatcttgctgagtacgtgcttttcttttgcttatgtagTCAGTGTTAGTGAGGTTGAGGCTCTATTCGAGCTGTTCAAGAGCATAAGTGGTTCAGTGATTGACGATGGCCTGATCAACAAG
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ctaaatgtgaattattagtctctt--tgtttgtttgtttgtttgttcctggtaattctttgttttgatctcgtagtgt-tgcttgtttttttctcttttccagTTAGTGTGAGTGAGGTTGAAGCATTATTTGAGCTATTCAAGAGCATAAGCAGTTCGGTTGTTGATGATGGTCTGATTAACAAG
upper sequence: GRMZM2G015324_T05 (Zea mays), 3'ss of exon 1
lower sequence: AT4G17615.2 (Arabidopsis thaliana), 3'ss of exon 2
--gagcactggatgcatgctgcatgatccttgcgttttcggtaatttctaa-attgccctctctatatcttgctgagtacgtgcttttcttttgcttatgtagTCAGTGTTAGTGAGGTTGAGGCTCTATTCGAGCTGTTCAAGAGCATAAGTGGTTCAGTGATTGACGATGGCCTGATCAACAAG-----------------
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ctaaatgtgaattattagtctctt--tgtttgtttgtttgtttgttcctggtaattctttgttttgatctcgtagtgt-tgcttgtttttttctcttttccagTTAGTGTGAGTGAGGTTGAAGCATTATTTGAGCTATTCAAGAGCATAAGCAGTTCGGTTGTTGATGATGGTCTGATTAACAAGGTACAAAGTTTGTTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaaattgccctctctatatcttgctgagtacgtgcttttcttttgcttatgtagTCAGTGTTAGTGAGGTTGAGGCTCTATTCGAGCTGTTCAAGAGCATAAGTGGTTCAGTGATTGACGATGGCCTGATCAACAAG
ttctaaa putative branch site (score: 2)
tgcttttcttttgctt putative PPT
ttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagcactggatgcatgctgcatgatccttgcgttttcggtaatttctaaattgccctctctatatcttgctgagtacgtgcttttcttttgcttatgtagTCAGTGTTAGTGAGGTTGAGGCTCTATTCGAGCTGTTCAAGAGCATAAGTGGTTCAGTGATTGACGATGGCCTGATCAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - tggatgc
- - - - - - -atgctgc
- - - - - - - - - - - - tccttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgcttt