Sequence
atgc intronic sequence ATGC exonic sequence...tagaagatggttgaccatagtaatcctctaattactttgttaaaaatatttacaggcttaaatctgaaaggtgggtcctttatggtttatttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g41400.1 (Oryza sativa), 3'ss of exon 3
----tagaagatggttgaccatagtaatcctctaattactttgttaaaaatatttacaggcttaaatctgaaaggtgggtcctttatggtttatttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC
| ||| || | | | | | | | || ||||| | ||| | | | || | | || | | | | | | || | ||||||||||||| || || |||||||||||||| ||||| ||||| || ||||| ||||| ||||| || || |||||||||||||| || ||||| ||||
gttgttgaac-tgctcaatcgtttttagtatgtatgtacttcatatgcaatctgttta--tttgttttatatagttctgatttcttccttgtgatt-tgtacagACTGTTCGCTTCAAGAATGAGCTGGAGCGTAACATCACTATAAAGCTTGGTTATGCTAATGCGAAAATCTACAAATGTGAAGACGAGAAATGCCCACGAC
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g07740.1 (Oryza sativa), 3'ss of exon 3
-tagaagatggttgaccatagtaatcctctaattactttgttaaaaatatttacaggcttaaatctgaaaggtgggtcctttatggtttat-ttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC
| | || | |||| | | | || | ||| ||| | | | ||| || || | || | | | | | | | || | |||| ||||| || || |||||||||||||| ||||| ||||| || ||||| ||||| ||||| || || |||||||||||||| || || || ||||
gttcatgaacatctttcatatttagtatttatgttcttcacatgtaat--tcatatatttatatttgtatagttgtcctgatgtcttccttgtgatttgtagACCGTTCGCTTCAAGAATGAGCTGGAGCGTAACATCACTATAAAGCTTGGCTATGCTAATGCGAAAATCTACAAATGTGAAGACGAGAAATGTCCACGAC
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G117900_T01 (Zea mays), 3'ss of exon 3
tagaagatggttgaccatagtaatcctctaattactttgttaaaaatatttacag-gcttaaatctgaaaggtgggtcctttatggtttatttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC
||| | || | | | | | || |||| | || || | | | | | | | || | |||||||||| || || ||||||||||| || ||||||||||| || || || ||||| ||||| || || ||||||||||| ||||| | || || ||||
-ggaactttttttttgagtcccaatcatttttcaccatgtttgtgcttggtatgttatttgttttccacaaatattttgatggctaagttttgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G107654_T01 (Zea mays), 3'ss of exon 3
tagaagatggtt--gaccat-agtaatcctcta--attactttgttaaaaatatttacaggcttaaatctgaaaggtgggtcctttatggtttatttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC
| ||| || |||| | | | | | | || || || | |||| | ||| | || | | | ||| ||| || || | |||||||||| || || ||||||||||| || ||||||||||| || || || || || ||||| || || ||||||||||| ||||| | || || ||||
-aactgattttttcgaccctcaatcctttttcaccatgtctgtgcttggtatataatttgttttata-ctaatattttggtggcttaattttggctt---tgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGTTACGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCGCGAC
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G18240.2 (Glycine max), 3'ss of exon 3
-tagaagatggttgaccatagta-atcctctaattactttgttaaaaatatttacaggcttaaatctgaaaggtgggtcctttatggtttatttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC
|| | | |||| | || || | || || | | ||| | ||| | | || || ||| | | | | | | |||||||| ||||| ||||||||| ||||||| |||||||| ||||| ||||| ||||||||||| || |||||||| |||||||||||||| || || | |
ttatacataagcattccatcttttattcttaatacacattttcttttagctttggatatttacactgttgacctgtgttgtttccg--tgaatgttgtgcagACTGTGCGTTTCAAAAATGAGTTGGAGCGTAACATTACAATCAAGCTTGGCTATGCAAATGCAAAAATATACAAGTGTGAAGATGAACGATGTCCAAGGC
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G40750.1 (Glycine max), 3'ss of exon 3
-tagaagatggttgaccata-gtaatcctctaattactttgttaaaaatatttacaggcttaaatctgaaaggtgggtcctttatggtttatttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC
|| | | | ||||| | || || | || || | | || | ||||| | | || ||| | | | | | |||||||| ||||| ||||||||| ||||||| |||||||| ||||| ||||| ||||| ||||| || |||||||| ||||||||||||||||| || | |
ttacacgtaagcatgccatatattattcttcatacacattctccgttagccttggatatttaaactgttgacctctgttgttttca--tgaatgttgtgcagACTGTGCGTTTCAAAAATGAGTTGGAGCGTAACATTACAATCAAGCTTGGCTATGCTAATGCAAAAATATACAAGTGTGAAGATGAACGGTGTCCAAGGC
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G04170.1 (Arabidopsis thaliana), 3'ss of exon 3
------------tagaagatggttgaccatagtaatcctctaa--ttactttgttaaaaatatttacaggcttaaatctgaaaggtgggtcctttatggtttatttatct-------acagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC
|| | | || || || |||||||| | || | | | | ||| || | || | | | | |||||||| |||||| ||||||||| |||||||||||||| ||||||| |||||||| || || |||||||||||||| |||||||| ||||||||||| ||||| |||||| |||
gtaaaatttgattatgcggtt-ttcacaattgtaatcctagaggcttttctagcttgcagcgtttgatcaattggag-tgggtgaagtgatttctatggtttccttatcttctctgtacagACTGTCCGTTTTAAAAATGAATTGGAGCGTAACATTACCATTAAGCTTGGATATGCAAACGCCAAGATTTACAAATGTGAGGATGAGAAATGCCCTAGAC
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ26525 (Selaginella moellendorffii), 3'ss of exon 1
tagaagatggttgaccatagtaatcctctaattactttgttaaaaatatttacaggcttaaatctgaaaggtgggtcctttatggtttatttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC
|| ||| || ||||| | | | | || | || | || | | | | | |||||||| || || || ||||| ||||||| ||||| || ||||| || || ||||| ||||| ||||| |||| ||||||||||| || |||||||| |
-------------------gtgatctagagcttgttttgt-gtctccagtgccgagtttgatgttgttttctttgtttgattctttgttctgcttctcagACTGTCCGCTTCAAGAATGAATTGGAGCGTAACATCACAATCAAGCTCGGCTATGCGAATGCGAAGATTTACATGTGTGAAGATGAGCGATGCCCTCGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatttacaggcttaaatctgaaaggtgggtcctttatggtttatttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC
tttattt CT-rich tract
tttatggtttatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagaagatggttgaccatagtaatcctctaattactttgttaaaaatatttacaggcttaaatctgaaaggtgggtcctttatggtttatttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - -tggttga
- - - - - - - - - - - - cctctaa
- - - - - - - - - - - - - - - - - - - - -aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggtggg