Sequence
atgc intronic sequence ATGC exonic sequence...taaaaatataaacagagtttaccaattctattatctttcatttgtctgaatcatattactaagacatatcatacttagatgcagtgttgcaattatatagGTTAAATATACTTGCTGAGCTTCTTCGTTTTGGGGACCGTGAGTTCTATAAAGATTGGTGGAATGCAAAAACAGTTGAGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g01930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os05g10810.1 (Oryza sativa), 3'ss of exon 9
---------------------------------------------------taaaaatataaacagagtttaccaattctattat-ctttcatttgtctgaatcata-----ttactaagacata------------tcatactt--agatgcagtgttg-caattatatagGTTAAATATACTTGCTGAGCTTCTTCGTTTTGGGGACCGTGAGTTCTATAAAGATTGGTGGAATGCAAAAACAGTTGAGGAG
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gtaatttccattttctacttattcataatcaagaaaatggtcactattagactataatatattcaaaatcaatttatttctgaatgcatacatttccttgcatgatccaagcttgtgaacaaataatttctctaacaccagacttacagtttaaacattgataattgcacagGTTAAGTATACTTGCTGAGATTCTTCGATTTGGTGACCGTGAATTCTACAAAGATTGGTGGAATGCAAAAACAATTGATGAG
upper sequence: Vv11s0016g01930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os06g36800.1 (Oryza sativa), 3'ss of exon 9
taaaaatataaacagagtttaccaattctattatctttcatttgtctgaatcatattactaagacatatcatacttagatgcagtgttgca-----attatatagGTTAAATATACTTGCTGAGCTTCTTCGTTTTGGGGACCGTGAGTTCTATAAAGATTGGTGGAATGCAAAAACAGTTGAGGAG
| | |||| | || || | | ||| ||| | | |||| | ||| |||| | ||| | || ||||| ||||| ||||||||||| || ||||||| || ||||| ||||| || || ||||||||||| ||||||||||| |||
---gttttggatcagaatgggaaaaacataagttttaccataaccagagttcaacctttcatctcatac--tgcttccgtgcatttttgttccttttctgtacagGTTGAATATTCTTGCTGAGCTCCTCTGTTTTGGTGATCGTGAATTCTACAAGGACTGGTGGAATGCCAAAACAGTTGAAGAG
upper sequence: Vv11s0016g01930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G130749_T01 (Zea mays), 3'ss of exon 9
--------------------------------------------------------------taaaaatataaacagagtttaccaattctattatctttcatttgtctgaatcatattact-------aagacatatcatacttaga----tgcagtgttgcaattatat----------agGTTAAATATACTTGCTGAGCTTCTTCGTTTTGGGGACCGTGAGTTCTATAAAGATTGGTGGAATGCAAAAACAGTTGAGGAG
| ||||| | | | |||| | | | ||| | | | |||| | | | | ||| | || | |||||| | | | |||||| |||||||| |||||||||||| ||||||| ||||| ||||| || ||||| ||||| |||||||||||||| ||| |||| |||
gtagtaaattatattttctatctattcattcaaattcaaatacatgatcgatcctgatattattctaatatcagtcatcgatgcttcttctccgaacatgcatgctctcggagaaaattatttccttttatgctctttcaaatttgcatatttgcagtttcgaacttatattcatctatacagGTTAAACATACTTGCTGAGATTCTTCGATTTGGTGACCGAGAATTCTACAAAGACTGGTGGAATGCAAAGACAATTGATGAG
upper sequence: Vv11s0016g01930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G06120.1 (Glycine max), 3'ss of exon 9
taaaaatataaacagagtttaccaatt-----ctattatctttcatttgtctgaatcatattactaagacatatcatacttagatgcagtgttgcaattatatagGTTAAATATACTTGCTGAGCTTCTTCGTTTTGGGGACCGTGAGTTCTATAAAGATTGGTGGAATGCAAAAACAGTTGAGGAG
| || ||| ||| || | | || | ||| | | ||||||| | || || | || || || | |||| |||| |||||||||||| || || ||||||||||| ||||| || ||||| ||||| || |||||||||||||| ||||| || || ||
ttgtctcatttctagatattagaaaatgttcacctttgtttttttaagatttagttcatatt--tgaggcagcttatcattggagtgactgttccaat---gtagGTTAAATATCCTGGCAGAGCTTCTTCGATTTGGTGATCGTGAATTCTACAAGGATTGGTGGAATGCCAAAACTGTCGAAGAT
upper sequence: Vv11s0016g01930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G16560.1 (Glycine max), 3'ss of exon 9
taaaaatataaacagagtttaccaattctattatctttcatttgtctgaatcatattactaagacatatcatacttagatgcagtg-ttgcaattatatagGTTAAATATACTTGCTGAGCTTCTTCGTTTTGGGGACCGTGAGTTCTATAAAGATTGGTGGAATGCAAAAACAGTTGAGGAG
| || ||| ||| || | | | |||| |||| | || ||| || | | || |||| || | || ||||||||||||| | || ||||||||||| ||||| || ||||| ||||| | |||||||||||||| ||||| ||||| ||
ttgtctcatttgtagatattagaaaaggt-tcacctttgattttttaagatttagttaatatttgaggaagcttatcattggagtgactgtcgtaatgtagGTTAAATATATTGGCAGAGCTTCTTCGATTTGGTGATCGTGAATTCTACCAGGATTGGTGGAATGCCAAAACTGTTGAAGAT
upper sequence: Vv11s0016g01930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G19450.1 (Arabidopsis thaliana), 3'ss of exon 9
------------------------------------------taaaaatataaacagagtttac------caattctattatctttcatttgtctgaatcatattactaagacatatcatacttagatgcagtgttgcaattatatagGTTAAATATACTTGCTGAGCTTCTTCGTTTTGGGGACCGTGAGTTCTATAAAGATTGGTGGAATGCAAAAACAGTTGAGGAG
||||| ||| || | | | | | | ||| ||| ||| | || || | | | | |||| | | ||| | | | |||||||| ||| | || |||||||| | || ||||| ||||| ||||| |||||||||||||||||||||| || | ||
gtatgctgtgatcccatctctttcaaaataatttgcaaattcgaaaaaccgaaaaaggctaaatctcatacgaatttgatatttttagtttcttagagtcgg--tgatgtaatttcagttactga-acgcaaatctcttgtc-caaagGTTAAACATATTGGCAGAGCTTCTCTGCTTCGGGGATCGTGAATTCTACAAAGATTGGTGGAATGCAAAAAGTGTGGGAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgaatcatattactaagacatatcatacttagatgcagtgttgcaattatatagGTTAAATATACTTGCTGAGCTTCTTCGTTTTGGGGACCGTGAGTTCTATAAAGATTGGTGGAATGCAAAAACAGTTGAGGAG
aattatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaaatataaacagagtttaccaattctattatctttcatttgtctgaatcatattactaagacatatcatacttagatgcagtgttgcaattatatagGTTAAATATACTTGCTGAGCTTCTTCGTTTTGGGGACCGTGAGTTCTATAAAGATTGGTGGAATGCAAAAACAGTTGAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
-aaaaata
- - - - -aaacaga
- - - - - - - - - - -ccaattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatgcag