Sequence
atgc intronic sequence ATGC exonic sequence...tttcacggtgaaacaaaacatgataaaaatcattttcctcaacatatttttctttccgagaatatactgtataattctaattgtcatttttataatgtagGTACTGTGAGATTTAATCTTGATCCTTTCAATGAGCACAATGATGCTGACCTTTGGAAGGCTCTAAAGAGAGCACATCTCAAGGACTTCATTAGGATGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os04g52900.2 (Oryza sativa), 3'ss of exon 24
-tttcacggtgaaacaaaacatgataaaaatcattttcctcaacatatttttctttccgagaatatactgtataattctaattgtcatttttataatgtagGTACTGTGAGATTTAATCTTGATCCTTTCAATGAGCACAATGATGCTGACCTTTGGAAGGCTCTAAAGAGAGCACATCTCAAGGACTTCATTAGGATGAA
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gtttgtttgtgaaa--atacatgata-----tatcttctc--gtttgcttttctt-----------acatcataaatgttttttttggtactattgtccagGTTCTGTTCGATTTAATCTGGATCCTTTTAATGAGCACAATGATGCGGATCTCTGGGAAGCGCTTGAAAGGGCTCATCTAAAAGATGTCATAAGGAGGAA
upper sequence: Vv10s0003g04460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G084181_T01 (Zea mays), 3'ss of exon 23
tttcacggtgaaacaaaacatgataaaaatcattttcctcaacatatttttctttccgagaatatactgtataattctaattgtcatttttataatgtagGTACTGTGAGATTTAATCTTGATCCTTTCAATGAGCACAATGATGCTGACCTTTGGAAGGCTCTAAAGAGAGCACATCTCAAGGACTTCATTAGGATGAA
|| | | ||| | | | | | | | | ||||| | | | || ||| | ||| || | ||| |||| | |||||||| ||||| || ||||||||||||||||| ||||| ||| ||||||| | || || ||||| || || | || |||| |||
-------gtatgctagtgaaaaatacatgttagctgctggagcttctttttttggcaacttgggtttagtgaaatatttattaatgccctttca-----gGTTCTGTTCGGTTTAATCTGGATCCCTTTAATGAGCACAATGATGCGGACCTCTGGGAGGCTCTGGAAAGGGCTCATCTAAAAGATGTTATAAGGAGGAA
upper sequence: Vv10s0003g04460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G46940.1 (Glycine max), 3'ss of exon 25
-tttcacggtgaaacaaaacatgataaaaatcattttcctcaacatatttttctttccgagaatatactgtataattctaattgtcatttttataatgtagGTACTGTGAGATTTAATCTTGATCCTTTCAATGAGCACAATGATGCTGACCTTTGGAAGGCTCTAAAGAGAGCACATCTCAAGGACTTCATTAGGATGAA
| | ||| | | | || | | || ||| | || | || | | |||| ||| | || | |||| ||||| | || ||||||||||| || ||||| ||||||||||||||||| ||| | ||| || | || || ||| | ||||| | || || | ||
acattgtattatcttaaattttcccttggttgtgaataaacattgtttattagcttcagtaaaacttctcccttctaaaaattatcactctttctct-tagGAACTGTTCGTTTCAATCTTGATCCATTTAATGAACACAATGATGCTGACCTATGGCAAGCTTTAGAAAGGGCGCATTTGAAGGATGTAATAAGAAGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttctttccgagaatatactgtataattctaattgtcatttttataatgtagGTACTGTGAGATTTAATCTTGATCCTTTCAATGAGCACAATGATGCTGACCTTTGGAAGGCTCTAAAGAGAGCACATCTCAAGGACTTCATTAGGATGAA
ttctaat putative branch site (score: 2)
tcattttt putative PPT
aatatactgtataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcacggtgaaacaaaacatgataaaaatcattttcctcaacatatttttctttccgagaatatactgtataattctaattgtcatttttataatgtagGTACTGTGAGATTTAATCTTGATCCTTTCAATGAGCACAATGATGCTGACCTTTGGAAGGCTCTAAAGAGAGCACATCTCAAGGACTTCATTAGGATGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - aaacaaa
- - - - - - - - - - - ataaaaa
- - - - - - - - - - - - - - - - - -tcctcaa