Sequence
atgc intronic sequence ATGC exonic sequence...ttcttttgctttatcattaaagcacagaatgctgtcaatctatgcttattggggtttgtggcatcataattcttatactggtttttcttaatttttgtagGTTCGCAGGCTGAGGATACAACAAAGAATTAAAAATGCTGAACTTGGAATTCTAAAAGAACAGGAAAATGAACTCCAAAATTTTCCATCATTCATTCCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0013g00350.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g43500.1 (Oryza sativa), 3'ss of exon 2
-ttcttttgctttatcattaaagcacagaatgctgtcaatctatgcttattggggtttgtggcatcataattcttatactggtttttcttaatttttgtagGTTCGCAGGCTGAGGATACAACAAAGAATTAAAAATGCTGAACTTGGAATTCTAAAAGA---ACAGGAAAATGAACTCCAAAATTTTCCATCATTCATTCCAT
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tttagattgctttcagtttgttataccttctaaagttcttctgtgcagtgtcagatgtgttttgtgctgtatcct-tatttttctattttcgtgtacgtagATTCGCAGGTTGAGAATACAACAAAGAATAAAGAATGTTGAACTTGGGATCTCAGTTGATGTGCCTGAAGGGGAACTTCCTGATTTTCCATCATTCATTC---
upper sequence: Vv16s0013g00350.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G36770.2 (Glycine max), 3'ss of exon 2
------------------------------------------------------------------ttcttttgctttatcattaaagcacagaatgctgtcaatctatgcttat-tggggtttgtggcatcataattcttatactggtttttcttaatttttgtagGTTCGCAGGCTGAGGATACAACAAAGAATTAAAAATGCTGAACTTGGAATTCTAA---AAGAACAGGAAAATGAACTCCAAAATTTTCCATCATTCATTCCAT
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gtcactccttcttatgacttcttatatacttctgctgtttcttggagcctttcattccgttggatgttctattactttttcttttgctctatttttttttataacagatattgagatggtcttcatgccctt----ttctcaaacagcttcctctta--ttttgtagGTTCGCAGGCTTAGGATACAACAAAGAATTAAAAACGCTGAACTTGGAATTTTAAGCGAAGAGCAAGAGAATGAACTTCCTAACTTCCCATCATTCATTC---
upper sequence: Vv16s0013g00350.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G00600.1 (Glycine max), 3'ss of exon 2
ttcttttgctttatcattaaa---gcacagaatgc---tgtcaatctatgcttattggggtttgtggcatcataattcttatactggtttttcttaatttttgtagGTTCGCAGGCTGAGGATACAACAAAGAATTAAAAATGCTGAACTTGGAATTCTAAA---AGAACAGGAAAATGAACTCCAAAATTTTCCATCATTCATTCCAT
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---tccaaatttagtacaaaacctgttcaaaattcaaattgccattcatgcatcttactctctgggaagtcctt-ttctcaaacaacatcctctta--ttttgtagGTTCGTAGGCTTAGGATACAGCAAAGAATTAAAAGTGCCGAACTTGGAATTTTAAACGAAGAGCAAGAGAATGAACTCCCTAACTTCCCATCATTCATTC--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattggggtttgtggcatcataattcttatactggtttttcttaatttttgtagGTTCGCAGGCTGAGGATACAACAAAGAATTAAAAATGCTGAACTTGGAATTCTAAAAGAACAGGAAAATGAACTCCAAAATTTTCCATCATTCATTCCAT
tcttaat putative branch site (score: 3)
tttttcttaattttt CT-rich tract
tttttcttaatttttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttttgctttatcattaaagcacagaatgctgtcaatctatgcttattggggtttgtggcatcataattcttatactggtttttcttaatttttgtagGTTCGCAGGCTGAGGATACAACAAAGAATTAAAAATGCTGAACTTGGAATTCTAAAAGAACAGGAAAATGAACTCCAAAATTTTCCATCATTCATTCCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- cttttgc
- - - - - - - - - aaagcac
- - - - - - - - - - - - - gaatgct
- - - - - - - - - - - - - - - - - - - -ctatgct
- - - - - - - - - - - - - - - - - - - - - - - - - -gggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggcatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atactgg