Sequence
atgc intronic sequence ATGC exonic sequencegtaagcactcttcactttgatttgatagatgagcttgaaaatttagtagtaaataatcttgattatccatttggttattcttatttctgatggaattttggtaaccagATTCCCACAGATAAAAATGGCCTCATTGAATACCGGGCCCATCCTTTTTGGATGCAGAAGTATTGTCCTTCCCATGAAAATGATGGTACACCTAGGTGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g42820.2 (Oryza sativa), 3'ss of exon 8
gtaagcactcttcactttgatttgatagatgagcttgaaaatttagtagtaaataatcttgattatccatttggttattcttatttctgatggaattttggtaaccagATTCCCACAGATAAAAATGGCCTCATTGAATACCGGGCCCATCCTTTTTGGATGCAGAAGTATTGTCCTTCCCATGAAAATGATGGTACACCTAGGTGCT
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gtaagaattcat-----------gttggatgagcatgagaatttagtaatagctactttttaac-tttatctgttgagttgtgctaatgaca----tttgatgatcagATTCCAACAAACAAAGATGGCCACATTGAATATCGGGCCCATCCTTTCTGGATGCAGAAGTATTGTCCTGCCCATGAAACTGATCGTACTCCTAGGTGCT
upper sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT1G19270.1 (Arabidopsis thaliana), 3'ss of exon 6
---------------------gtaagcactcttcactttgatttgatagatgagcttgaaaatttagtagtaaataatcttgattatccatttggttattcttatttctgatggaattttggtaaccagATTCCCACAGATAAAAATGGCCTCATTGAATACCGGGCCCATCCTTTTTGGATGCAGAAGTATTGTCCTTCCCATGAAAATGATGGTACACCTAGGTGCT
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gtacgtaaacctctttccttttctatcattttagcccataaatatattcatgtgttgttgttttgttccggatcttacacttatcgtctgttgctttgtttttctcccgaatgtaaattctttgaacagATACCAACAAATCATGCTGGTCTTATTGAATATAGGGCACATCCTTTTTGGGTTCAGAAGTATTGTCCTTCTCACGAACACGATGCTACCCCGAGATGTT
upper sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagcactcttcactttgatttgatagatgagcttgaaaatttagtagtaaataatcttgattatccatttggttattcttatttctgatggaattttggtaaccagATTCCCACAGATAAAAATGGCCTCATTGAATACCGGGCCCATCCTTTTTGGATGCAGAAGTATTGTCCTTCCCATGAAAATGATGGTACACCTAGGTGCT
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gtgagtgatagccaacttctgttgat-------ctctatattttacccaaaatttgttcccaggttgtactaagcttaatgtgtatgt-ataaatgtaactcctctagATTCCGACAAATCCAGCTGGTCTTATTGAGTATAGGGCACATCCCTTTTGGATGCAAAAGTATTGTCCTTCACATGAGCGTGATGGAACTCCTCGGTGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatcttgattatccatttggttattcttatttctgatggaattttggtaaccagATTCCCACAGATAAAAATGGCCTCATTGAATACCGGGCCCATCCTTTTTGGATGCAGAAGTATTGTCCTTCCCATGAAAATGATGGTACACCTAGGTGCT
ttctgat putative branch site (score: 3)
ttattcttatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcactcttcactttgatttgatagatgagcttgaaaatttagtagtaaataatcttgattatccatttggttattcttatttctgatggaattttggtaaccagATTCCCACAGATAAAAATGGCCTCATTGAATACCGGGCCCATCCTTTTTGGATGCAGAAGTATTGTCCTTCCCATGAAAATGATGGTACACCTAGGTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT