Sequence
atgc intronic sequence ATGC exonic sequence...caacatttttgcctggttcaagatatgtatgtgatgaacataattttactcaaaagtgatggtttcattgtactaactagcatcaatacttatgccagagTGGAGCAGTGTGTCTATGCACTACTCCGTACAAGAGACATGTCCCTCACGCTACAAGGAGTATGGGATCCCAGTTGACTGGTTGTCTGATTCCGGAGTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G396927_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g01449.1 (Oryza sativa), 3'ss of exon 6
----------------------------------caacatttttgcctggttcaagata-tgtatgtgatg---aacataattttactcaaaagtgatg----------gtttcattgtactaactagcatcaatacttatgccagagTGGAGCAGTGTGTCTATGCACTACTCCGTACAAGAGACATGTCCC--TCACGCTACAAGGAGTATGGGATCCCAGTTGACTGGTTGTCTGATTCCGGAGTAG
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gtaagcatctcctctgaaccattcttctcccaaattacatggttcctcagagtaagataataaatatcttgtcaagtccaattatctttagcaagcataagcatttgatgtttaattggactaacaagtatca-tacttatgtcagAGTGGAGCAGAGTGTTTATGCGCTACTTCGTACTAGAGACATGGCCATATCACGCTACAGGGAGTATGGAATACCGGTGGATTGGCTGTCTGATTCCGGG----
upper sequence: GRMZM2G396927_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g01439.2 (Oryza sativa), 3'ss of exon 5
---------------------------------caacatttttgcctggttcaagata-tgtatg---tgatgaacataattttactcaaaagtgatg----------gtttcattgtactaactagcatcaatacttatgccagagTGGAGCAGTGTGTCTATGCACTACTCCGTACAAGAGACATGTCCCT--CACGCTACAAGGAGTATGGGATCCCAGTTGACTGGTTGTCTGATTCCGGAGTAG
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gtaagcatctcctctgaaccattctctcccaaattccattgttcttcagagtgagataataaatatcttgtcaagtccaaatatgtttagcaagcataagcatttgatgtttaattggactaacaagtatta-tacttatgtcagAGTGGAGCAGAGTGTTTATGCGCTACTTCGTACTAGAGACATGGCCATATCACGCTACAGGGAGTACGGACTACCGGTGGATTGGCTGTCTGGTTCCGGG---- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactcaaaagtgatggtttcattgtactaactagcatcaatacttatgccagagTGGAGCAGTGTGTCTATGCACTACTCCGTACAAGAGACATGTCCCTCACGCTACAAGGAGTATGGGATCCCAGTTGACTGGTTGTCTGATTCCGGAGTAG
tactaac putative branch site (score: 0)
aatacttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caacatttttgcctggttcaagatatgtatgtgatgaacataattttactcaaaagtgatggtttcattgtactaactagcatcaatacttatgccagagTGGAGCAGTGTGTCTATGCACTACTCCGTACAAGAGACATGTCCCTCACGCTACAAGGAGTATGGGATCCCAGTTGACTGGTTGTCTGATTCCGGAGTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - -tgcctgg
- - - - - - - - - - - - atgtatg
- - - - - - - - - - - - - - - -tgatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agcatca