Sequence
atgc intronic sequence ATGC exonic sequence...tgtttcaagtaataaatttccagcttgcctgatatgctgaattttctgtttaactattgaacttctgcattgataactggtgatcaaatgtcttgtacagAAAATGAAAGTTACTTATGTTGGACTTGAACTCATTGAATTGAAATCTGGAGATCTTCGCTGGTGTCTGGATTTTAGAGATATGAATTCCCCTGCTATTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os10g42439.1 (Oryza sativa), 3'ss of exon 1
-tgtttcaagtaataaatttccagcttgcctgatatgctga-attttctgtttaactattgaacttctg--cattgataactggtgatcaaatgtcttgtacagAAAATGAAAGTTACTTATGTTGGACTTGAACTCATTGAATTGAAATCTGGAGATCTTCGCTGGTGTCTGGATTTTAGAGATATGAATTCCCCTGCTATTA
||| | | | | | | | |||| ||| ||| | | | ||| ||||| ||| | ||||| | | | | || ||||| | || ||||||| || || |||| ||| ||||| | ||||| ||||| |||||||| |||| |||||||||||| |||| |||||||| |
atgtactcactcaaagctgtttcaaagg---aatatactgttgtttaatcaccagttgttgg-tttctgattcttggttcctggttttgatctactctctatagAAACTCAAGGTTACTTCAGTGGGCATTGAGCTCCTTGAAGGACATTCTGGTGATCTGCGCTGGTGCTTGGACTTTAGAGATATGGATTCTCCTGCTATCA
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G12950.1 (Glycine max), 3'ss of exon 1
tgtttcaagtaataaatttccagcttgcctgatatgctgaattttctgtttaactattgaacttctgcattgataactggtgat--caaatgtcttgtacagAAAATGAAAGTTACTTATGTTGGACTTGAACTCATTGAATTGAAATCTGGAGATCTTCGCTGGTGTCTGGATTTTAGAGATATGAATTCCCCTGCTATTA
||| | || | || | ||| | | || | | |||| || | | || | || | || ||| ||||||| ||||||| ||||||||||| ||||||| | || ||||| || || ||||||||||| ||||||||||||| ||| |||||||||| ||||
-ctttgatatactgtatgatgaacttatacaaaaaaaaaaaaaaagaatg-agtggttgataagctaaactaattatcctatatggctggtggctttcacagAAATTGAAAGTAACTTATGTTGGTGTTGAACTTCTCGATACAAAATCGGGTGACCTTCGCTGGTGCTTGGATTTTAGAGACATGGATTCCCCTGCAATTA
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G08040.1 (Glycine max), 3'ss of exon 1
----tgtttcaagtaataaatttccagcttgcctgatatgctgaattttctgtttaactattgaacttctgcattgataactggtgatcaaatgtcttgtacagAAAATGAAAGTTACTTATGTTGGACTTGAACTCATTGAATTGAAATCTGGAGATCTTCGCTGGTGTCTGGATTTTAGAGATATGAATTCCCCTGCTATTA
|||| ||||| | | | || ||| || | | | | || | | || || || ||| ||||||| ||||||| ||||||||||| ||||||| | || || || || || ||||||||||| ||||||||||||| ||| |||||||||| ||||
cggcagttttctttaatataccgtatggtgaacttatacaaaaaagaatgca---gggtgataagctaaactaattatcctgtatggctgg-tggctttaacagAAATTGAAAGTAACTTATGTTGGTGTTGAACTTCTCGATACAAAGTCGGGTGACCTTCGCTGGTGCTTGGATTTTAGAGACATGGATTCCCCTGCAATTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtttaactattgaacttctgcattgataactggtgatcaaatgtcttgtacagAAAATGAAAGTTACTTATGTTGGACTTGAACTCATTGAATTGAAATCTGGAGATCTTCGCTGGTGTCTGGATTTTAGAGATATGAATTCCCCTGCTATTA
tgataac putative branch site (score: 2)
taactatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttcaagtaataaatttccagcttgcctgatatgctgaattttctgtttaactattgaacttctgcattgataactggtgatcaaatgtcttgtacagAAAATGAAAGTTACTTATGTTGGACTTGAACTCATTGAATTGAAATCTGGAGATCTTCGCTGGTGTCTGGATTTTAGAGATATGAATTCCCCTGCTATTA
- - - - - aataaat
- - - - - - - - - - - -cttgcct
- - - - - - - - - - - - - - - - tatgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atcaaat