Sequence
atgc intronic sequence ATGC exonic sequence...tgattttgtttggaaagtcttggttgtacgtgtaaccatgtaagatgtgggaaaaatatcaatgaacatggaaatcattctttttgtgatgtccctgcagGGCAAAGTACGGGATCAGTGAGATGTGTCGGGACCAGTGGAACTGGGCCAGCAAGAACCCATATGGCTACGAATCATCCCCAACAACAGACTAAAACATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os08g28730.1 (Oryza sativa), 3'ss of exon 8
tgattttgtttggaaagtcttggttgtacgtgtaaccatgtaagatgtgggaaaaatatcaatgaacatggaaatcattctttttgtgatgtccctgcagGGCAAAGTACGGGATCAGTGAGATGTGTCGGGACCAGTGGAACTGGGCCAGCAAGAACCCATATGGCTACGAATCATCCCCAACAACAGACTAAAACATC
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------------gtaagttttacatcaacggataatcacatgaacctttttcttggtttccacctaactgg----tattgtcttt---------ccccagAGCGAAATTTGGCATCGATGAAATGTGTAGGGATCAATGGAACTGGGCTAGCAAGAACCCTTATGGATACGGGTCACTTGACTCCACCAAGCAGAACGGA
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G469523_T01 (Zea mays), 3'ss of exon 3
tgattttgtttggaaagtcttggttgtacgtgtaaccatgtaagatgtgggaaaaatatcaatgaacatggaaatcattctttttgtgatgtccctgcagGGCAAAGTACGGGATCAGTGAGATGTGTCGGGACCAGTGGAACTGGGCCAGCAAGAACCCATATGGCTACGAATCATCCCCAACAACAGACTAAAACATC
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------------gtaagtcatatatcgaggtataatatgttatcatgacaaaatggctttattgtatatt-atatgatcaacttcgtc---ttcctctagAGCAAAATACGGTATTGAAGAGATGTGCCGCGACCAATGGAACTGGGCCAGCAAGAACCCTTATGGCTATGGATCACCTGACTCTATCAAGCAGAATGGT
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ35039 (Selaginella moellendorffii), 3'ss of exon 8
tgattttgtttggaaagtcttggttgtacgtgtaaccatgtaagatgtgggaaaaatatcaatgaacatggaaatcattctttttgtgatgtccctgcagGGCAAAGTACGGGATCAGTGAGATGTGTCGGGACCAGTGGAACTGGGCCAGCAAGAACCCATATGGCTACGAATCATCCCCAACAACAGACTAAAACATC---
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-------------------------gtaagtatcttt-cattagaactgttccctttttgtttggcttacaagttcatgtcccacttcgcatc---gcagGGCCAGGTATGGTATCGATGAAATGGCCAGGGATCAATGGAACTGGGCCAGCAAGAATCCATACGGCTACG---TCTACGAAGAGGAGAACAATCACACCGAG
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ17435 (Selaginella moellendorffii), 3'ss of exon 8
tgattttgtttggaaagtcttggttgtacgtgtaaccatgtaagatgtgggaaaaatatcaatgaacatggaaatcattctttttgtgatgtccctgcagGGCAAAGTACGGGATCAGTGAGATGTGTCGGGACCAGTGGAACTGGGCCAGCAAGAACCCATATGGCTACGAATCATCCCCAACAACAGACTAAAACATC---
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-------------------------gtaagtatcttt-cattagaactgttacctttttgtttggcttacaagttcatgtcccacttcgcatc---gcagGGCCAGGTATGGTATCGATGAAATGGCCAGGGATCAATGGAACTGGGCCAGCAAGAATCCATACGGCTACG---TCTACGAAGAGGAGAACAATCACACCGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgggaaaaatatcaatgaacatggaaatcattctttttgtgatgtccctgcagGGCAAAGTACGGGATCAGTGAGATGTGTCGGGACCAGTGGAACTGGGCCAGCAAGAACCCATATGGCTACGAATCATCCCCAACAACAGACTAAAACATC
tgtccct CT-rich tract
aaaaatatcaatgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattttgtttggaaagtcttggttgtacgtgtaaccatgtaagatgtgggaaaaatatcaatgaacatggaaatcattctttttgtgatgtccctgcagGGCAAAGTACGGGATCAGTGAGATGTGTCGGGACCAGTGGAACTGGGCCAGCAAGAACCCATATGGCTACGAATCATCCCCAACAACAGACTAAAACATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - tgtttgg
- - - - - - - - - - tggttgt
- - - - - - - - - - - - - - - - - -ccatgta
- - - - - - - - - - - - - - - - - - - - - - - - - -aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaacatg