Sequence
atgc intronic sequence ATGC exonic sequencegtaagccttttgtcttgactcctttgtaagtttcccagaaattcttttatctgaccatctctactatttgccagATTCTAAATTTCAAAGATAACAATATAAACAATGAGGGGATGCTTCGTATAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTCGGAGGATACCTTCTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G575696_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g33720.1 (Oryza sativa), 3'ss of exon 4
------------------------------------------gtaagccttttgtcttgactcctttgtaagtttcccaga---aattcttttatctgaccatctctactatttgccagATTCTAAATTTCAAAGATAACAATATAAACAATGAGGGGATGCTTCGTATAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTCGGAGGATACCTTCTTT
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gtaagtttgttctttagaatctttcaccaataatttcttatcacaaacatgatacatatttaaatgttgggctttttcaaacttcattattgtgattcatcttttctactatctggcagATGCTAAAGTTCAAAGATAACAATATTAACAATGAGGGAATGCTTCGTACAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTTGGAGGATATCTTCTTT
upper sequence: GRMZM2G575696_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA03G32130.2 (Glycine max), 3'ss of exon 3
-------------------------gtaagccttttgtct-tgactcctttgtaagtttcccagaaattcttttatctgaccatctctactatt-tgccagATTCTAAATTTCAAAGATAACAATATAAACAATGAGGGGATGCTTCGTATAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTCGGAGGATACCTTCTTT
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acacattttacccataaaatcatcaccaaaacttaagtttctcacctaattgagagtattttaattttaacactatatt-ccttcacaattgctctttcagATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCTGTTCTTGATGTTGGCTGTGGGGTTGCTAGCTTTGGAGGATACCTCCTTT
upper sequence: GRMZM2G575696_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G00880.2 (Glycine max), 3'ss of exon 4
------------------------gtaagccttttgtcttgactcctttgt--aagtttcccagaaattcttttatctgaccatctctactatttgccagATTCTAAATTTCAAAGATAACAATATAAACAATGAGGGGATGCTTCGTATAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTCGGAGGATACCTTCTTT
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attttcaagaccatgtttgacagtgttagttttttggtgcattcggattatttaaattcactttcatctcatggatctcacagtgagtttgtattgccagATGCTCAATTTTTCAAACAACAATCTTAATAATGAAGGAAGACTGCGGACGGTTCTTGATGTTGGCTGTGGTGTTGCGAGTTTTGGAGCATATCTTCTTT
upper sequence: GRMZM2G575696_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G34890.1 (Glycine max), 3'ss of exon 4
-----------------gtaagccttttgtcttgactcctttgtaagtttccca---gaaattcttttatctgaccat--ctctactatt----tgccagATTCTAAATTTCAAAGATAACAATATAAACAATGAGGGGATGCTTCGTATAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTCGGAGGATACCTTCTTT
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taaaacacattttacccataaaatcatcacccaaacatagaagtttctcacctaattgagagtattttaacactatattcctccacaattgctctttcagATGCTTAATTTTCCAAACAATGATATAAACAATGGGGGAAGAGTCAGGTCTGTTCTTGATGTTGGCTGTGGGGTTGCTAGCTTTGGAGGATATCTTATTT
upper sequence: GRMZM2G575696_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------gtaagccttttgtct---tgactcctttgtaagtttcccagaaattcttttatctgaccatctctact--att----tgccagATTCTAAATTTCAAAGATAACAATATAAACAATGAGGGGATGCTTCGTATAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTCGGAGGATACCTTCTTT
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gtaagttggttctttacaatgtccaaaagggaaaaatggaaagccaagacttgtaaatacattaatcttgtgcttgtgttctgctgaataagtga--tgatcatttttaatggattggactggcagATGCTCAACTTTCCAAATAATAATTTAAACAATGGAGGAAGGATCCGCACAGTCCTTGATGTCGGTTGTGGAGTGGCAAGTTTCGGAGCATATCTTCTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctttgtaagtttcccagaaattcttttatctgaccatctctactatttgccagATTCTAAATTTCAAAGATAACAATATAAACAATGAGGGGATGCTTCGTATAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTCGGAGGATACCTTCTTT
atctgac putative branch site (score: 3)
tctctact putative PPT
agaaattcttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagccttttgtcttgactcctttgtaagtttcccagaaattcttttatctgaccatctctactatttgccagATTCTAAATTTCAAAGATAACAATATAAACAATGAGGGGATGCTTCGTATAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTCGGAGGATACCTTCTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT