Sequence
atgc intronic sequence ATGC exonic sequencegtctctttttatatgatgggtcatggaaaacacagctttgcatgtctatctgctctgtagcttattgtacaattaacaccagatttatttgttcatgaatcttcagGTGCTTGTGGCAGATATAAACATTGGTTATGAAGATATAGTCAACATTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G868913_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os06g12780.1 (Oryza sativa), 3'ss of exon 6
------------------------gtctctttttatatgatgggtca--tggaaaacacagctttgcatgtctatctgctctgtagcttattgtacaattaacaccagatttatttgt-------tcatgaatcttcagGTGCTTGTGGCAGATATAAACATTGGTTATGAAGATATAGTCAACATTCAG
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gtctcaagttctttctgtactaacctatgtttttatgttataaatgagatggctaac-ctttcttgcttttatttagagcttggtatttattatttcatca-tatgacaattttttgaaaaaaaatgatgaattttcagGTTCTTGTAGCAGATATCAACATTGGTTATGAAGAAATTGTCAATATTCAG
upper sequence: GRMZM5G868913_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S176_87V6.1 (Physcomitrella patens), 3'ss of exon 7
gtctctttttatatgatgggtcatg-gaaaacaca-gctttgcatgtctatctgctctgtagcttattgtacaattaacaccagatttatt--tgttcatgaatct-tcagGTGCTTGTGGCAGATATAAACATTGGTTATGAAGATATAGTCAACATTCAG
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----------acattatacaacatttgaaaatatgtgatttggattcgaaccaaaaatacaaatcaatgt-cgtctactgacgaacttgtcggcgttgatgaggttgtcagGTGCTGGTGGCGGATATCAACATAGGTTATGAAGATATTGTGAACACGCAG
upper sequence: GRMZM5G868913_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S176_111V6.1 (Physcomitrella patens), 3'ss of exon 5
gtctctttttatatgatgggtcatg-gaaaacaca-gctttgcatgtctatctgctctgtagcttattgtacaattaacaccagatttatt--tgttcatgaatct-tcagGTGCTTGTGGCAGATATAAACATTGGTTATGAAGATATAGTCAACATTCAG
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----------acattatacaacatttgaaaatatgtgatttggattcgaaccaaaaatacaaatcaatgt-cgtccactgacgaacttgtcggcgttgatgcgggtgtcagGTGCTGGTGGCGGATATCAACATAGGTTATGAAGATATTGTGAACACGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctctgtagcttattgtacaattaacaccagatttatttgttcatgaatcttcagGTGCTTGTGGCAGATATAAACATTGGTTATGAAGATATAGTCAACATTCAG
aattaac putative branch site (score: 2)
tcttc putative PPT
ttattgtacaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctctttttatatgatgggtcatggaaaacacagctttgcatgtctatctgctctgtagcttattgtacaattaacaccagatttatttgttcatgaatcttcagGTGCTTGTGGCAGATATAAACATTGGTTATGAAGATATAGTCAACATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA