Sequence
atgc intronic sequence ATGC exonic sequencegtatgcttacccactactaacagcagttcttgacaatttaccatatcgaagctgtcacataagctatatggtgtacataactgcacttgttcgtacagATCGGCATCTTTTGTTTGCCATCGAGGGGTGTCATTCCTCTCCACAATCACCCTGGCATGACTGTGTTCAGCAAGCTTTTGTTTGGTGCCATGCATATAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G108898_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g09030.1 (Oryza sativa), 3'ss of exon 2
gtatgcttacccac--tactaac---agcagttcttgacaatttacca-tatcgaagctgtcacataagctatatggtgtacataa--ctgcacttgttcgtacagATCGGCATCTTTTGTTTGCCATCGAGGGGTGTCATTCCTCTCCACAATCACCCTGGCATGACTGTGTTCAGCAAGCTTTTGTTTGGTGCCATGCATATAA
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gtatgtttattcgcaatagcaactaaaattgttcttgattattaccaactagaaaatttgtcgtttttgtgtgctaaggtacataagtctatacttgttcctacagATCGGCATCTTTTGTTTGCCTCCAAGGGGTGTCATTCCTCTCCATAATCACCCCAACATGACTGTGTTCAGTAAGCTTCTTTTTGGTGAGCTGCGTGTGA
upper sequence: GRMZM2G108898_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA09G37490.2 (Glycine max), 3'ss of exon 2
---------gtatg-cttacccactactaaca-gcagttcttg-acaatttaccatatcgaagctgtcacataagctatatggtgtacataactgcacttgttcgtac-------agATCGGCATCTTTTGTTTGCCATCGAGGGGTGTCATTCCTCTCCACAATCACCCTGGCATGACTGTGTTCAGCAAGCTTTTGTTTGGTGCCATGCATATAA
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gtaattaagctatgacttataaattgctttctcgcagtgctagtgttgtttaatttgtttggtgtgtaagggtaactttatttcttataattttattgttatttttatgtgttgaagATGGGAATATTTTGCTTGCCACCTTGTGGAGTTATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTTCTGTTTGGAACCATGCACATCA
upper sequence: GRMZM2G108898_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G05230.1 (Glycine max), 3'ss of exon 2
gtatgcttacccactactaacagcagttcttgacaatttac-catatcgaagctgtcacataagctatatggtgtacataactgcacttgttcgt--------acagATCGGCATCTTTTGTTTGCCATCGAGGGGTGTCATTCCTCTCCACAATCACCCTGGCATGACTGTGTTCAGCAAGCTTTTGTTTGGTGCCATGCATATAA
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--gtacttactctaaccttgaaactgat-ttcacggtgcatgcatgcatgagactgagtgctgtttttgttgtgattataaccttgttttattgttgtgttgcacagATGGGGATATTTTGTTTGCCACCTTCTGGGGTCATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTACTTTTTGGCACTATGCACATCA
upper sequence: GRMZM2G108898_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT5G39890.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgcttacccactactaacagcagttcttga--caatttaccatatcgaagctgtcacataagctatatggtgtacataactgcacttgttcgtac--agATCGGCATCTTTTGTTTGCCATCGAGGGGTGTCATTCCTCTCCACAATCACCCTGGCATGACTGTGTTCAGCAAGCTTTTGTTTGGTGCCATGCATATAA
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----------gtatatatcttaacgaatcttgaattggtctattctttatggtttcttcaatctcttatttggttttgtt--ttgtttttgtgtgtaacaagATTTGCATTTTCTGTTTACCTCCATCTGGTGTTATCCCTCTTCACAATCACCCGGAGATGACTGTGTTTAGTAAGCTCTTGTTTGGTACAATGCATATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatcgaagctgtcacataagctatatggtgtacataactgcacttgttcgtacagATCGGCATCTTTTGTTTGCCATCGAGGGGTGTCATTCCTCTCCACAATCACCCTGGCATGACTGTGTTCAGCAAGCTTTTGTTTGGTGCCATGCATATAA
acataac putative branch site (score: 3)
cttgttc putative PPT
tacataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcttacccactactaacagcagttcttgacaatttaccatatcgaagctgtcacataagctatatggtgtacataactgcacttgttcgtacagATCGGCATCTTTTGTTTGCCATCGAGGGGTGTCATTCCTCTCCACAATCACCCTGGCATGACTGTGTTCAGCAAGCTTTTGTTTGGTGCCATGCATATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT