Sequence
atgc intronic sequence ATGC exonic sequencegtagaatatctccttgtgcttcgtttttaacatgtgaaattgtaaaagtgaactgtcattatcccctcctggctcatctatttagttgctcatgttttttatatggactaatctaatactgtatatgcagCTAACAAGTGTAGTTTGGAGATTGATTACAAACAGTTCATCTATATCCATCCCAATATTGCTATCTGGCTGGCTGATGCCCCTCAATCTGTCCTTGAGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 3'ss of exon 5
gtagaatatctccttgtgcttcgtttttaacatgtgaaattgtaaaagtgaactgtcattatcccctcctggctcatctatttagttgctcatgttttttatatggactaatctaatactgtatatgcagCTAACAAGTGTAGTTTGGAGATTGATTACAAACAGTTCATCTATATCCATCCCAATATTGCTATCTGGCTGGCTGATGCCCCTCAATCTGTCCTTGAGGT
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-------------gtatgattctcttttcctttttgca-tgaaaaaaggccacatttgttggcattgtaagaaatgcttgcttaccta---atgtttcctctcc-----------------tctttgcagCTAACAAATGCAGCTTAGAGATAGATTACAAGCAATTTATTTATATACATCCAAACATTGCTATATGGTTGGCTGATGCACCTCAATCGGTGCTAGAAGT
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G139894_T01 (Zea mays), 3'ss of exon 5
gtagaatatctccttgtgcttcgtttttaacatgtgaaattgtaaaagtgaactgtcattatcccctcctggctcatctatttagttgctcatgttttttatatggactaatctaatactgtatatgcagCTAACAAGTGTAGTTTGGAGATTGATTACAAACAGTTCATCTATATCCATCCCAATATTGCTATCTGGCTGGCTGATGCCCCTCAATCTGTCCTTGAGGT
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-------------------------------------------gtatgtctgct-tcacattctctggttggc--atgaaacaaggtctttgcttctctgacc----cttatctattttttt---cgcagCTAACAAGTGTAGCCTGGAAATAGACTACAAGCAGTTTATTTATATACATCCAAACATTGCCATCTGGTTGGCTGATGCGCCTCAATCGGTGCTTGAAGT
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G03920.1 (Glycine max), 3'ss of exon 4
gtagaatatctccttgtgcttcgtttttaacatgtgaaattgtaaaagtgaactgtcattatcccctcctggctcatctatttagttgctcatgttttttatatggactaa---tctaatactgtatatgc-agCTAACAAGTGTAGTTTGGAGATTGATTACAAACAGTTCATCTATATCCATCCCAATATTGCTATCTGGCTGGCTGATGCCCCTCAATCTGTCCTTGAGGT
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---------------------------------gtaatataatatatattctctatgat-atgtttgcgtacttgtgacagttagtgat--atctttgttacaccagcttactctttttgtttttaaatgccagCTAGTAAGTGCAGTTTGGAGATAGATTACAAACAATTTATCTATGTTCATCCCAACATTGCCATTTGGCTAGCTGATGCCCCTCAATCTGTCTTAGAAGT
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 4
gtagaatatctccttgtgcttcgtttttaacatgtgaaattgtaaaagtgaactgtcattatcccctcctggctcatctatt-tagttgctcatgttttttatatggactaatc-taatactgtata-tgcagCTAACAAGTGTAGTTTGGAGATTGATTACAAACAGTTCATCTATATCCATCCCAATATTGCTATCTGGCTGGCTGATGCCCCTCAATCTGTCCTTGAGGT
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-----------------------------------------------gtaatataatatattctctactgtgttcatgtcttgtaactgtgacactgagtgatatatcttactcattgtgttttttaatgcagCTAGTAAGTGCAGTTTGGAGATAGATTATAAACAATTTATCTATGTTCATCCCAACATTGCCATTTGGCTAGCTGATGCCCCTCAATCTGTCTTAGAAGT
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G44900.1 (Arabidopsis thaliana), 3'ss of exon 3
gtagaatatctccttgtgcttcgtttttaacatgtgaaattgtaaaagtgaactgtcattatcccctcctggctcatctatttagttgctcatgttttttatatggactaatctaatactgtatatgcagCTAACAAGTGTAGTTTGGAGATTGATTACAAACAGTTCATCTATATCCATCCCAATATTGCTATCTGGCTGGCTGATGCCCCTCAATCTGTCCTTGAGGT
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---------------gtactttcgttttctt-tgtgctatagctaca-taagttctcttta-------ctggtaaatttac--agtcattagctctct------gaacta-tcta----tgtgtttgcagCTAATAAGTGCAGTCTGGAAATTGATTACAAAGAATTCATACACGTCCACCCGAATATTGCAATCTGGCTTGCGGATGCTCCACAACCTGTGCTTGAAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctatttagttgctcatgttttttatatggactaatctaatactgtatatgcagCTAACAAGTGTAGTTTGGAGATTGATTACAAACAGTTCATCTATATCCATCCCAATATTGCTATCTGGCTGGCTGATGCCCCTCAATCTGTCCTTGAGGT
tcatgttttttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagaatatctccttgtgcttcgtttttaacatgtgaaattgtaaaagtgaactgtcattatcccctcctggctcatctatttagttgctcatgttttttatatggactaatctaatactgtatatgcagCTAACAAGTGTAGTTTGGAGATTGATTACAAACAGTTCATCTATATCCATCCCAATATTGCTATCTGGCTGGCTGATGCCCCTCAATCTGTCCTTGAGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT