Sequence
atgc intronic sequence ATGC exonic sequence...gcctcctggattaaattatctttcacccaaattagaggattgaagatttatttcattcttgtccagttcttgatatttttcactttgcattattatttagCTTGCAAAGAAGTTCCATCCTGATACCAATAAAGAGGATCCAGATGCCGAGAAAAAGTTTCAAGAGGTTCAAAAGGCATATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0064g01360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g07060.1 (Oryza sativa), 3'ss of exon 4
gcctcctggattaaattatctttcacc-caaattagaggattgaagatttattt-cattcttgtccagttcttgat---atttttcactttgc--atta---ttatttagCTTGCAAAGAAGTTCCATCCTGATACCAATAAAGAGGATCCAGATGCCGAGAAAAAGTTTCAAGAGGTTCAAAAGGCATATGAG
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----------ctcaataacctgtgtttgctaggtatatttttgtctgtttctctacatttccctttattttttactcaaagttttaactaaactgattatgcttccccagCTCGCAAAGAAATTCCATCCTGATACTAATAAAGAAGATGCTGATGCAGAAAAGAAATTTCAAGAAGTTCAGCATGCCTACGAG
upper sequence: Vv13s0064g01360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os06g02620.1 (Oryza sativa), 3'ss of exon 3
gcctcctggattaaattatctttcacccaaattagaggattgaagatttatttcattcttgtccagttcttgatatttttcactttgcattattattt----agCTTGCAAAGAAGTTCCATCCTGATACCAATAAAGAGGATCCAGATGCCGAGAAAAAGTTTCAAGAGGTTCAAAAGGCATATGAG
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--cattggcatttcctttccttatgcaccatcgaaagaaaaaaaaaatcatcgcgta-ttgtttacctcacaatcccttttttttt-ctttgttgtcctaaaagCTTGCGAAAAAGCTCCATCCGGATACAAATAAAGGTGATTCTGATGCAGAGAGGAAGTTTCAAGAGGTTCAGCGAGCTTATGAG
upper sequence: Vv13s0064g01360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G118316_T01 (Zea mays), 3'ss of exon 4
gcctcctggattaaattatctttcacccaaattagaggattgaagatttatttcattcttgtccagttcttgatatttttc---actttgcattattatttagCTTGCAAAGAAGTTCCATCCTGATACCAATAAAGAGGATCCAGATGCCGAGAAAAAGTTTCAAGAGGTTCAAAAGGCATATGAG
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---ttgtattttccatttgtgctcccatcgatctgtttcttctacttattcttgttatctgctaattcatttggttttaacaaaatttatcattcttctccagCTCGCAAAGAAGTTCCATCCTGATACTAATAAAGATGCT---GATGCAGAAAAAACATTTCAAGAAGTTAACCGTGCCTATGAG
upper sequence: Vv13s0064g01360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G42640.1 (Glycine max), 3'ss of exon 4
-gcctcctggattaaattatctttcacccaaattagaggattgaa-gatttatttcattcttgtccagttcttgatatttttcactttgcattattatttagCTTGCAAAGAAGTTCCATCCTGATACCAATAAAGAGGATCCAGATGCCGAGAAAAAGTTTCAAGAGGTTCAAAAGGCATATGAG
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gctcttacatatgcaatcacttatt-cctaagtgagttatttgtctgaaataattctttctattttccttttgtactgtcttttttctccat-gttctccagCTTGCAAAGAAGCTCCATCCAGACACAAACAAAGATGATCCTGAGGCCGAAAAGAAGTTTCAAGAAGTTTCAATGGCATATGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttatttcattcttgtccagttcttgatatttttcactttgcattattatttagCTTGCAAAGAAGTTCCATCCTGATACCAATAAAGAGGATCCAGATGCCGAGAAAAAGTTTCAAGAGGTTCAAAAGGCATATGAG
tcttgat putative branch site (score: 4)
atatttttcactttgc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcctcctggattaaattatctttcacccaaattagaggattgaagatttatttcattcttgtccagttcttgatatttttcactttgcattattatttagCTTGCAAAGAAGTTCCATCCTGATACCAATAAAGAGGATCCAGATGCCGAGAAAAAGTTTCAAGAGGTTCAAAAGGCATATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
gcctcct
- - - - - - - - - - - tcaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttgca