Sequence
atgc intronic sequence ATGC exonic sequence...ttttcatttccctttttatgtttgtctttgatttgtgcttgtgctcttagcagtcctacatcatgatattctgcactgacattgcaatctctatatgtagCTTTCATTTCAAGAATGGACACAACAAGTGCAAGAGATGTTGAACACAAAGAAATTCGGGGATATTGCATTTAGGGACAAGGATTTCAAGAGTGCAATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os10g42110.1 (Oryza sativa), 3'ss of exon 8
ttttcatttccctttttatgtttgtctttgatttgtgcttgtgctcttagcagtcctacatcatgatattctgcactgacattgcaatctctata-tgtagCTTTCATTTCAAGAATGGACACAACAAGTGCAAGAGATGTTGAACACAAAGAAATTCGGGGATATTGCATTTAGGGACAAGGATTTCAAGAGTGCAATTG
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ttgctgaaatatttcagaaattatggagtcacattcatttggtttgttaaga-taagctagttttattttgtgcatgtttatggtgatgtaaaaactgaagCTGTCCTTTCAAGAATGGACTCAGCAAGTGCAAGAGATGCTGAATACCAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTCAAGACTGCAATTG
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G054634_T01 (Zea mays), 3'ss of exon 8
-ttttcatttccctttttatgtttgtctttgatttgtgcttgtgct-cttagcagtcctacatcatgatattctgcactgacattgcaatctctatatgtagCTTTCATTTCAAGAATGGACACAACAAGTGCAAGAGATGTTGAACACAAAGAAATTCGGGGATATTGCATTTAGGGACAAGGATTTCAAGAGTGCAATTG
||| | | | || | | ||| | || | | || || ||| | | || | |||| | ||| | | || |||| || |||||||||||||| || ||||||||||||||| ||||||||||||| || || || ||||||||||| ||||||||||| |||| ||||||||
atttgtgtctgcacttgctcaagtatttttaaattat-caagtcctacttgtttttttaagatgagtctatttcgt-ctggtgcatgttttaaaaactgaagCTATCCTTTCAAGAATGGACCCAGCAAGTGCAAGAGATGCTGAACACAAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTTAAGACTGCAATTG
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G169080_T01 (Zea mays), 3'ss of exon 8
ttttcatttccctttttatgtttgtctttgatttgtgcttgtgctcttagcagtcctacatcatga---tattctgcactgacattgcaatctctatatgtagCTTTCATTTCAAGAATGGACACAACAAGTGCAAGAGATGTTGAACACAAAGAAATTCGGGGATATTGCATTTAGGGACAAGGATTTCAAGAGTGCAATTG
|| | | | || | | || | || || ||| | || | || | |||| || |||| | | || || | || |||||||||||||| || ||||||||||||||| ||||||||||||| || || || ||||||||||| ||||||||||| |||| ||||||||
-ttgtgtctacacttgctcaagtattttgaaattatgaagtcctacttgtctgtttattaagataagtttattttgt-ctgatgc-atgtttaaaaactgaagTTATCCTTTCAAGAATGGACCCAGCAAGTGCAAGAGATGCTGAACACAAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTTAAGACTGCAATTG
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G06140.1 (Glycine max), 3'ss of exon 8
---ttttcatttccctttttatgtttgtctttgatttgtgcttgtgctcttagcagtcctacatcatgatattctgcactgacattgcaatctctatatgtagCTTTCATTTCAAGAATGGACACAACAAGTGCAAGAGATGTTGAACACAAAGAAATTCGGGGATATTGCATTTAGGGACAAGGATTTCAAGAGTGCAATTG
|| | ||||| | | || || | | |||| | | | || | | || |||| | || | || || | || || |||||||||| |||||||||||||||||||||||||| || ||||||||||| || || |||||||||||||| || |||||||||||||| | ||||||||
cacaaaattgttaattgtttatcctacttgttaatctcaggttgttttgccaactgtttttgtgcttgctattgttcattaacta---aaaatgtaattgcagCTTTCATTCCAAGAATGGACACAACAAGTGCAAGATATCTTGAACACAAAAAAGTTTGGGGATATTGCATTCAGAGACAAGGATTTCAAAAATGCAATTG
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G16420.1 (Glycine max), 3'ss of exon 8
--ttttcatttccctttt-tatgtttgtctttgatttgtgcttgtgctcttagcagtcctacatcatgatattctgcactgacattgcaatctctatatgtagCTTTCATTTCAAGAATGGACACAACAAGTGCAAGAGATGTTGAACACAAAGAAATTCGGGGATATTGCATTTAGGGACAAGGATTTCAAGAGTGCAATTG
| | || | | | ||||| || | | || ||||| | | | | | | || ||| || | | || || || || |||||||||| |||||||||||||||||||| ||||| || ||||||||||| || || |||||||||||||| || |||||||||||||| | |||||| |
actataaatgtaaatctcacatgttaacggttaacctctggttgtgttgccaactatttt-tgtgatt-tatcttgtcccttaactgaaaatgtaat-tgcagCTTTCATTCCAAGAATGGACACAACAAGTACAAGATATCTTGAACACAAAAAAGTTTGGGGATATTGCATTCAGAGACAAGGATTTCAAAAATGCAATCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttagcagtcctacatcatgatattctgcactgacattgcaatctctatatgtagCTTTCATTTCAAGAATGGACACAACAAGTGCAAGAGATGTTGAACACAAAGAAATTCGGGGATATTGCATTTAGGGACAAGGATTTCAAGAGTGCAATTG
cactgac putative branch site (score: 2)
tctctat putative PPT
atgatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttcatttccctttttatgtttgtctttgatttgtgcttgtgctcttagcagtcctacatcatgatattctgcactgacattgcaatctctatatgtagCTTTCATTTCAAGAATGGACACAACAAGTGCAAGAGATGTTGAACACAAAGAAATTCGGGGATATTGCATTTAGGGACAAGGATTTCAAGAGTGCAATTG
- - catttcc
- - - - - - - - - - - - - - - - - gtgcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - cctacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcaatc