Sequence
atgc intronic sequence ATGC exonic sequence...caaaactgctgctactatcttttctaggagtacctgttactcaagctttctgaatgagagaaacttgaaatgtgttcacttacatgtcttttgtgcacagTGATTGTAGGTGAAATTGCTAATTTTGCTGCTTATGCATTCGCTCCAGCTATTCTTGTCACTCCTCTTGGTGCACTAAGTATAATCATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G104147_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g09140.2 (Oryza sativa), 3'ss of exon 2
-caaaactgctgctactatcttttctaggagtacctgttactcaagctttctgaatgagagaaacttgaaatgtgttcacttacatgtcttttgtgcacagTGATTGTAGGTGAAATTGCTAATTTTGCTGCTTATGCATTCGCTCCAGCTATTCTTGTCACTCCTCTTGGTGCACTAAGTATAATCATAAG
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tctaatatactgaagttactgtttcatttgtttttagacaaaaaatgtcactaag-gaaagaaacttgactaatggcatcttacatgacctttgtgaacagTGATTGTGGGAGAAATTGCAAATTTTGCTGCTTATGCATTTGCTCCTGCTATTCTTGTTACTCCTCTTGGGGCACTCAGTATAATCATCAG
upper sequence: GRMZM2G104147_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT1G34470.1 (Arabidopsis thaliana), 3'ss of exon 2
------------------------------------------------------------caaaactgctgct--actatcttttctaggagtacctgttactcaagctttctg-aatgagagaaacttgaaatgtgttcac--------ttacatgtcttttgtgcacagTGATTGTAGGTGAAATTGCTAATTTTGCTGCTTATGCATTCGCTCCAGCTATTCTTGTCACTCCTCTTGGTGCACTAAGTATAATCATAAG
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gtgagttcccttcatatttaaaggtttgctccttttttggggtcttggtttacttgttgttagtactgcagattggttttgtttgttgttattggaagatggtgagggtataagtagttattggcgtttcagtgatgttgatgggatagacaatgtttcattgttttgcagTGATTGTAGGGGAAATTGCCAATTTTGCTGCTTATGCCTTTGCGCCTGCCATTTTAGTAACTCCTCTTGGTGCTCTCAGCATAATTATCAG
upper sequence: GRMZM2G104147_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT1G71900.1 (Arabidopsis thaliana), 3'ss of exon 2
caaaactgctgctactatcttttctaggagtacctgttactcaagctttctgaatgagagaaacttgaaatgtgttcacttacatgtcttttgtgcacagTGATTGTAGGTGAAATTGCTAATTTTGCTGCTTATGCATTCGCTCCAGCTATTCTTGTCACTCCTCTTGGTGCACTAAGTATAATCATAAG
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-----gtgagtcttctttgctttttaatcttctttcttagtgatttgattactatgttgttggtttgttttgt-tgctcattggtttctgctacttccagTGTTACTTGGTGAAATTGCCAATTTCGCTGCTTATGCATTTGCGCCTGCTATACTTGTCACTCCTCTAGGTGCTGTCAGTATCATTATCAG
upper sequence: GRMZM2G104147_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT4G09640.1 (Arabidopsis thaliana), 3'ss of exon 2
-------------------------------caaaactgctgctac--------tatcttttctaggagtacctgttactcaagctttctgaatga-----gagaaacttgaaatgtgttcacttacatgtcttttgtgc-acagTGATTGTAGGTGAAATTGCTAATTTTGCTGCTTATGCATTCGCTCCAGCTATTCTTGTCACTCCTCTTGGTGCACTAAGTATAATCATAAG
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gtgagtttctttgattcttacatgtttcgtttaagacttttcttacctgaggtttagctgtgcaatgtggtgttggcattattgtttcttggaagattgtggtggcatttatggtagacacaat-gtttgtcttttgttttgtagTGATTGTGGGGGAAATTGCAAACTTTGCTGCGTATGCGTTTGCACCTGCCATTCTAGTTACTCCTCTTGGTGCGCTTAGCATTATTATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttctgaatgagagaaacttgaaatgtgttcacttacatgtcttttgtgcacagTGATTGTAGGTGAAATTGCTAATTTTGCTGCTTATGCATTCGCTCCAGCTATTCTTGTCACTCCTCTTGGTGCACTAAGTATAATCATAAG
cacttac putative branch site (score: 2)
tgtctttt CT-rich tract
ttgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaaactgctgctactatcttttctaggagtacctgttactcaagctttctgaatgagagaaacttgaaatgtgttcacttacatgtcttttgtgcacagTGATTGTAGGTGAAATTGCTAATTTTGCTGCTTATGCATTCGCTCCAGCTATTCTTGTCACTCCTCTTGGTGCACTAAGTATAATCATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC