Sequence
atgc intronic sequence ATGC exonic sequencegtagattgaactatccttttcttgttgcatctgactacattttggccgcaatttgatcatatggatgcactttcttttaaacagGGGTTCACATTAACAAGGGCCTTCTTGCACTTGGCAACGTCATTAGTGCACTTGGTGATGAGAAAAAAAGGAAAGAAGGCGTTCATGTTCCTTATCGGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os09g02650.1 (Oryza sativa), 3'ss of exon 5
-----------gtagattgaactatcct--tttcttgttg--catctgactacattttggccgcaat--ttgatcatatggatgcac-tttcttttaaacagGGGTTCACATTAACAAGGGCCTTCTTGCACTTGGCAACGTCATTAGTGCACTTGGTGATGAGAAAAAAAGGAAAGAAGGCGTTCATGTTCCTTATCGGGA
|| | ||| ||||| | || | |||| || || | || | | || || | | || | | | |||| ||||| || |||| || |||||||| |||||||| ||||| ||||| || |||||||||||||| ||||||||||||| |||||||||||| |||||
gtacttggcatgttgcttgttctatctgaatccctaatcaaacatccatcttgtcttgaaacaagatactccgtataatttatttatgtatcatgtcatcagGTGTTCATATCAACAGAGGACTTCTTGCTCTTGGCAATGTCATCAGTGCTCTCGGTGATGAGAAAAAGAGGAAAGAAGGCGCTCATGTTCCTTACCGGGA
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G04380.1 (Glycine max), 3'ss of exon 5
-gtagattgaactatcctttt-cttgttgcatctgactacattttggccgcaatttgatcatatggatgcactttcttttaaacagGGGTTCACATTAACAAGGGCCTTCTTGCACTTGGCAACGTCATTAGTGCACTTGGTGATGAGAAAAAAAGGAAAGAAGGCGTTCATGTTCCTTATCGGGA
||| ||| || ||| | | | | | | | ||| | | | ||| | | ||||| ||||||| |||||||||||||| ||||| || |||||||| || || |||||||||||||||||||| || || | || ||||| ||||||||||| ||| ||||
gttagtttgggacattttttcacctttatcgttcaagcatgcttttgagaacacatattcac-tagtaatttaatctttcaaacagGAGTTCACATTAACAAAGGCCTCCTAGCACTTGGTAATGTTATTAGTGCACTTGGTGATGAAAAGAAGCGAAAGGAAGGTGTTCATGTTCCATATAGGGA
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G09390.1 (Glycine max), 3'ss of exon 5
gtagattgaactatccttttcttgttgcatctgactacattttggccgcaatttgatcatatggatg-cactttcttttaaacagGGGTTCACATTAACAAGGGCCTTCTTGCACTTGGCAACGTCATTAGTGCACTTGGTGATGAGAAAAAAAGGAAAGAAGGCGTTCATGTTCCTTATCGGGA
|| || || ||||| | ||| | | ||| | || | ||| | | || ||||||| || |||| |||||||||||||| |||||||| || || ||||| || |||||||||||||||||||| || || || || ||||| ||||||||||||||| ||||
gttaggcatggcatttttcacttgtatcttctaaacttacttttgat-cattatgaattttcgaataattttttctttcaatcagGAGTTCACATTAACAAAGGCCTTCTAGCGCTCGGCAATGTTATTAGTGCACTTGGTGATGAAAAGAAGAGAAAGGAAGGTGTTCATGTTCCTTATAGGGA
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G04520.1 (Glycine max), 3'ss of exon 5
-gtagattgaactatccttttcttgttg-catctgactacattttggccgcaatttgatcatatggatgcactttcttttaaacagGGGTTCACATTAACAAGGGCCTTCTTGCACTTGGCAACGTCATTAGTGCACTTGGTGATGAGAAAAAAAGGAAAGAAGGCGTTCATGTTCCTTATCGGGA
||| | | || ||| | || | | | | | | | | | | ||| | | | ||||| ||||||| |||||||||||||| ||||| || |||||||| || || ||||||||||||||||| || || || | || ||||| ||||||||||| ||| ||||
gttagttagggacattttttcatctttatcgtttaagcatgctcttgagaacacatattcac-tagttatttaatctttcaaacagGAGTTCACATTAACAAAGGCCTCCTAGCACTTGGTAATGTTATTAGTGCACTTGGTGACGAAAAGAAGCGAAAGGAAGGTGTTCATGTTCCATATAGGGA
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G35780.1 (Glycine max), 3'ss of exon 5
-gtagattgaactatccttttcttgttgcatctga-ctacattttggccgcaatttgatcatatggatgcactttcttttaaacagGGGTTCACATTAACAAGGGCCTTCTTGCACTTGGCAACGTCATTAGTGCACTTGGTGATGAGAAAAAAAGGAAAGAAGGCGTTCATGTTCCTTATCGGGA
||| || || || |||||| | ||| | || ||||| | || || | | ||||||| || |||| || ||||||||||| |||||||| || ||||| || || |||||||| ||||||||||| || || || |||||||| ||||||||||||||| ||||
gttaggcacgacaatt-ttcacttgtttcttctaaacttgcttttgatcattatg-aattctctaataattttttctttcaatcagGAGTCCACATTAACAAAGGCCTTCTAGCGCTTGGTAATGTTATTAGTGCGCTTGGTGATGAAAAGAAGAGAAAAGAAGGTGTTCATGTTCCTTATAGGGA
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S80_21V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------gtagattgaactatccttttcttgttgcatctgactacattttggccgcaatttgatcatatggatgcactttct----tttaaacagGGGTTCACATTAACAAGGGCCTTCTTGCACTTGGCAACGTCATTAGTGCACTTGGTGATGAGAAAAAAAGGAAAGAAGGCGTTCATGTTCCTTATCGGGA
| | || | | || | | | ||| | || | | || | | | | | | |||| || |||| || || || |||||||| ||||| |||||||||||||| |||||||| | || ||||| ||||| || || || || | ||| |||||||| | ||
aaagttctgacgtgctgctttcatt-tcttgatgctacggcactcaagtagttcgagaaagcgagtatctttgaaagttatgttttcgacggcttttgcagGTGTGCAAATCAACAAGGGACTTCTAGCACTTGGCAACGTAATTAGTGCTTTAGGGGATGACAAAAAGAGAAAGGAGGGAGGTCACGTTCCTTACAGAGA
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S237_18V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------gtagattgaactatccttttcttgttgcatctgactacattttggccgcaatttgatcatatggatgcactttct---tttaaacagGGGTTCACATTAACAAGGGCCTTCTTGCACTTGGCAACGTCATTAGTGCACTTGGTGATGAGAAAAAAAGGAAAGAAGGCGTTCATGTTCCTTATCGGGA
| || | || | || || | | |||| | | || | | | ||| | || |||| ||||||| |||| |||||| | |||||||| ||||| || |||||||| |||||||||| ||| | | |||||| | ||||||||||||| | ||
aagcgagccagccccacatgcatatagatcctagttcctgagccaagacaaatttcgctgtttaattaactgtcggtatgtttggtacgaattatctcagGTATTCACATAAACAGAGGCCTTTTAGCACTTGGAAACGTGATCAGTGCACTAGGTGATGAGAGAAAGCGAAGAGAAGGAGGTCATGTTCCTTATAGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgactacattttggccgcaatttgatcatatggatgcactttcttttaaacagGGGTTCACATTAACAAGGGCCTTCTTGCACTTGGCAACGTCATTAGTGCACTTGGTGATGAGAAAAAAAGGAAAGAAGGCGTTCATGTTCCTTATCGGGA
cactttctttt CT-rich tract
tttcttttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagattgaactatccttttcttgttgcatctgactacattttggccgcaatttgatcatatggatgcactttcttttaaacagGGGTTCACATTAACAAGGGCCTTCTTGCACTTGGCAACGTCATTAGTGCACTTGGTGATGAGAAAAAAAGGAAAGAAGGCGTTCATGTTCCTTATCGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG