Sequence
atgc intronic sequence ATGC exonic sequence...ctgtttttacctaatatatatatatcctccagttttcttaagactggttttttgggatgtgttagtaccattagtgttttggtccttactgtggtgacagGACAACCTTTCTGCTGTTGATATTCTTTCGGCATGCAATCTGGTGAACTATTTTGGGAAAATGGTTCTTGGAGGTTCTGGTGTTGGTCAAATCACTCTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g54340.1 (Oryza sativa), 3'ss of exon 5
ctgtttttacctaatatatatatatcctccagttttcttaagactggttttttgggatgtgttagtaccattagtgttttggtccttactgtggtgacagGACAACCTTTCTGCTGTTGATATTCTTTCGGCATGCAATCTGGTGAACTATTTTGGGAAAATGGTTCTTGGAGGTTCTGGTGTTGGTCAAATCACTCTCT
| | | || | | || || | || | | | || || ||| || | || || | | || |||| || || ||||| |||||||||| || || |||||||| || || ||||||||||| |||| ||||| || |||||||||||| |||| | |||
gtatgagaatctcgttctgacat----tctgttattatggttattatgcttatgatgggtgccagcttttctcatgcattcttgcccctctctgt---agGATAATCTCTCTGCAATTGATATTCTCTCAGCCTGCAATCTTGTAAATTATTTTGGGAAGATGGACCTTGGTGGCTCTGGTGTTGGTGAAATAGCAGTCT
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 5
--------------ctgtttttacctaatatatatatatcctccagttttcttaagactggttttttgggatgtgttag-taccattagtgttttggtccttactgtggtgacagGACAACCTTTCTGCTGTTGATATTCTTTCGGCATGCAATCTGGTGAACTATTTTGGGAAAATGGTTCTTGGAGGTTCTGGTGTTGGTCAAATCACTCTCT
| || | || || | || | | | || | | | || ||| | || | | | || || || | || || |||| || || |||||| | |||||||||||||| |||||||| || || |||||||| || |||| ||||| || ||||| |||||||| || | | |
gtatgggtgttgtttcttactttcttaccatctgaattttgtgtatttatactgaagttgtgtttacgatgaatgccaactttcttttatgaatttatatttc---tgactgtagGATAATCTCTCTGCTATCGATATTCTTTCGGCTTGCAATCTTGTAAATTATTTTGGAAAGATGGACCTTGGTGGCTCTGGCGTTGGTCAGATAGCAGTTT
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------ctgtttttacctaatatatatatatcctccagtt--ttcttaagactggttttttgggatgtgttagtaccat-tagtgttttggtcct-----tactgtggtgacagGACAACCTTTCTGCTGTTGATATTCTTTCGGCATGCAATCTGGTGAACTATTTTGGGAAAATGGTTCTTGGAGGTTCTGGTGTTGGTCAAATCACTCTCT
||| | | | ||| | | | | | | || ||||| || | | || | ||| | | ||||||| || || | | ||| ||||||||| |||||||| ||||||||||||| |||||||| || |||||||||||||| || ||||||||||| |||||||||||||| || || |||||||
gtacatcacttacatctgcatgctcttgttatgcaaactcatttgaataggtatatagaactggattagttag-tgaataggtattttattgtgtttttgttctatgtctcttatggctacagGACAATCTTTCTGCAATTGATATTCTTTCCGCATGCAACCTTGTGAACTATTTTGGAAAGATGGTTCTTGGTGGTTCTGGTGTTGGCCAGATTACTCTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttttttgggatgtgttagtaccattagtgttttggtccttactgtggtgacagGACAACCTTTCTGCTGTTGATATTCTTTCGGCATGCAATCTGGTGAACTATTTTGGGAAAATGGTTCTTGGAGGTTCTGGTGTTGGTCAAATCACTCTCT
tccttac putative branch site (score: 2)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtttttacctaatatatatatatcctccagttttcttaagactggttttttgggatgtgttagtaccattagtgttttggtccttactgtggtgacagGACAACCTTTCTGCTGTTGATATTCTTTCGGCATGCAATCTGGTGAACTATTTTGGGAAAATGGTTCTTGGAGGTTCTGGTGTTGGTCAAATCACTCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - tcctcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - ggatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccattag