Sequence
atgc intronic sequence ATGC exonic sequence...aacaacaaaaacacattctttttggagttgtcttgaatcattttttagatcttcttgaagttccagagcattaatgaatgtaagtttctgatttctgtagATTGAAATGGGCAGCACCAATGTGAGAATTGGATCAACCATATTTGGACCAAGGGAGTATCCTAAGAAAGAACAGAATTAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g00910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g72205.1 (Oryza sativa), 3'ss of exon 6
----------------------------------------aacaacaaaaacacattctttttggagtt--gtcttgaatcattttttagatcttcttgaagttccagagcattaatgaatgtaa--gtttctgatttctgtagATTGAAATGGGCAGCACCAATGTGAGAATTGGATCAACCATATTTGGACCAAGGGAGTATCCTAAGAAAGAACAGAATTAGC
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gtaagaaatacttttcattcatgtaatcgtgtctataggtgaatatcaaatcaaagtcac---gaaattaggttcagagttccctgtttgatccttt---agctaagcagttttgattttcatcattatgttggttttattcagATAGAGATGGGTAGCACAAGTGTGAGGATTGGGTCAACTATTTTTGGACCAAGGGAGTATCCAAACAAAAA---GAATTGA-
upper sequence: Vv19s0090g00910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G10370.1 (Glycine max), 3'ss of exon 6
------aacaacaaaaacacattctttttggagttgtcttgaatcattttttagatcttcttgaagttccagagcattaatgaatgtaagtttctgatttctgtagATTGAAATGGGCAGCACCAATGTGAGAATTGGATCAACCATATTTGGACCAAGGGAGTATCCTAAGAAAGAACAGAATTAGC-----
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tttttgaactacttttaagatttctcaactagctgatgttcttttactctt--gatcaattgtatacatgcaactgttgaaaaatat---ctttttgccttttcaGATTGAAATGGGTAGTACCAATGTAAGAATTGGATCCACAATATTTGGACCGAGGGAGTATGCAAAGAAACAGTAATAGCAAGAATTG
upper sequence: Vv19s0090g00910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G43230.3 (Glycine max), 3'ss of exon 7
-----aacaacaaaaacac-attctttttggagttg-tcttgaatcattttttagatcttcttgaagttccagagcattaatgaatgtaagtttctgatttctgtagATTGAAATGGGCAGCACCAATGTGAGAATTGGATCAACCATATTTGGACCAAGGGAGTATCCTAAGAAAGAACAGAATTAGC------------------
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ttttgaactactactttaagatttctcaacgagctgatgttcttttactctt--gatcaactgtatacatgcaactgttcaaaaatatt--tttttgttttc---agATTGAGATGGGTAGTACTAATGTAAGAATTGGATCCACAATATTTGGACCGAGGGAGTATGCAAAGAAACAATAATAGCAAGAAGTTGTAATCTCTCCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagatcttcttgaagttccagagcattaatgaatgtaagtttctgatttctgtagATTGAAATGGGCAGCACCAATGTGAGAATTGGATCAACCATATTTGGACCAAGGGAGTATCCTAAGAAAGAACAGAATTAGC
ttctgat putative branch site (score: 3)
tttctgt CT-rich tract
attaatgaatgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacaacaaaaacacattctttttggagttgtcttgaatcattttttagatcttcttgaagttccagagcattaatgaatgtaagtttctgatttctgtagATTGAAATGGGCAGCACCAATGTGAGAATTGGATCAACCATATTTGGACCAAGGGAGTATCCTAAGAAAGAACAGAATTAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- -aacaaaa
- - - - - -cacattc
- - - - - - - - - - - - - - tgtcttg