Sequence
atgc intronic sequence ATGC exonic sequence...aatgcgaaatcctgcctacatttgaattgaaaaatattcgttgtactttatcttggcataactcacatgtgagtgttccatctttgttcgtattgtgtagGAAGAGAAAGCTATTGAACGGGGGATTCTCCCATTACTCCAACGTGCAACCTTGGTTCAGACTTTTGGACAAAGGAACCATGTGTGCTTGAATGAGGGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g32110.1 (Oryza sativa), 3'ss of exon 2
-------------------------------------------------------------------------aatgcgaaatcctgcctacatttgaattgaaaaatattcgttgtacttt--atcttggcataactcacatgtgagtgttccatctttgttcgtattgtgtagGAAGAGAAAGCTATTGAACGGGGGATTCTCCCATTACTCCAACGTGCAACCTTGGTTCAGACTTTTGGACAAAGGAACCATGTGTGCTTGAATGAGGGTT
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gtaatgatatattggtttatttgtcttcttacctgccaagtccttgtcactgttgtagctagtcatgattttagttccacaatagttttaagaaataggtagctcaggatagatcctacctttagtccctatctattctgaaactgcatatgcaatggttatatgtctt-tacagGAAGAGAAAGCTATTGAGCGTGGGATACTTCCATTGCTCCGCCGTGCCACATTGGTTCAAACTTTTGGACAGAAGAACCATGTGTGCTTGAAGGAGGGTT
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os04g32670.1 (Oryza sativa), 3'ss of exon 2
--------------------------------------------------------------------------------aatgcgaa-at-cctgcctacatttgaa--ttga----aaaatattcgttgtactttatcttggcataactcacatgtgagtgttcc--atctttgttcgtattgtgtagGAAGAGAAAGCTATTGAACGGGGGATTCTCCCATTACTCCAACGTGCAACCTTGGTTCAGACTTTTGGACAAAGGAACCATGTGTGCTTGAATGAGGGTT
| | | | || || || || | || | | |||| ||| || || || ||| || || | |||||| | |||| | |||||||||| ||||||||||| || || ||||| || || || |||||||| || ||||| || || |||||||| ||||||||| ||||| || |||||||
gtgtgtgctaattcccttggcatctcacatttggatttgtctgtgtgtaattctctttctgatttcattgtttactttggagtttggacatacccttttagatgtcaacgctaaggataaaacattattttgaccttttctactcacaagttctgaagtagtgttattaactgttgtatactatttgtagGAAGAAAAAGCTATTGAGCGTGGAATTCTACCGTTGCTGCAACGTGCTACGTTGGTCCAAACATTTGGACAGGAGAACCATGTTTGCTTAAAAGAGGGTT
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G059825_T01 (Zea mays), 3'ss of exon 2
---aatgcgaaatcctgcctacatttgaattgaaaaatattcgttgt-actttatcttggcataactcacatgtgagtgttccatctttgttcgtattgtgt-agGAAGAGAAAGCTATTGAACGGGGGATTCTCCCATTACTCCAACGTGCAACCTTGGTTCAGACTTTTGGACAAAGGAACCATGTGTGCTTGAATGAGGGTT
| | ||| | | || | |||| || | ||| ||| | | || ||| || || | ||| || | ||| | ||| ||||||||||||| |||| |||||| || || || || || || ||||| || ||||||||||| |||||||| | ||||||||| ||| |||| || || |
tttagtagaaaaaaccactcac---taaatttccaattgactactgttactgtctgtttcaatatcttg-atatttctgtaacaagtac-ttcaaactgtaccagGAAGAGAAAGCCATTGGACGGGGAATCCTTCCCTTGCTTCAGCGTGCTACGTTGGTTCAGACCTTTGGACAGAAGAACCATGTCTGCCTGAAGGATGGGT
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G37920.1 (Glycine max), 3'ss of exon 2
------------------------------------------------------------aatgcgaa-atcctgccta-catttgaattgaaaaatattcg---ttgtactttatcttg-gcataactcacatg-tgagtgttccatctttgttcgtattgtgtagGAAGAGAAAGCTATTGAACGGGGGATTCTCCCATTACTCCAACGTGCAACCTTGGTTCAGACTTTTGGACAAAGGAACCATGTGTGCTTGAATGAGGGTT
||| | || | || | |||| ||| | || | || | ||| | || ||| | | | | |||| | | |||||||||| || |||||| | || ||||| ||||| || || ||||| ||||||||||| || |||||||| ||||| |||||||||||||| ||||| |
gtaagaaatttagtgtaccgttttaattttgctattttcatcactattagttctattaagaattcaaacaaattgtgtggtgtttggtgagaaggaccttggattttattcttcaatatgtacatggatattgtaacatgcacttttatcatgtttttccgttccagGAAGAGAAGGCAATTGAAAGAGGAATTCTTCCATTGCTTCAGCGTGCTACCTTGGTTCAAACATTTGGACAGAGGAATCATGTGTGCTTGAAAGAGGGCT
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G17140.1 (Glycine max), 3'ss of exon 2
------------------------------------------------------------aatgcga---aatcctgcctacatttgaattgaaaaatattcgttgtacttt---atcttggcataactcacatg-tgagtgttccatctttgttcgtattgtgtagGAAGAGAAAGCTATTGAACGGGGGATTCTCCCATTACTCCAACGTGCAACCTTGGTTCAGACTTTTGGACAAAGGAACCATGTGTGCTTGAATGAGGGTT
||| | | ||| || || | | | || || ||| | | | ||| | | | | |||| | | | ||||||||||||| |||||| | || ||||| ||||| || || ||||| ||||||||||| || ||||| || ||||| |||||||||||||| ||||| |
gtaagaaatttagtgtaccattttaattttgttatttaaatcactattagttcttttaagaattcaaacaaattttgtggtttttggtgacaaggaccatggattccactattaaagatgtacatggatattgtaacatgcacttttatcatgtttttttgttccagGAAGAGAAAGCAATTGAAAGAGGAATTCTTCCATTGCTTCAGCGTGCTACCTTGGTTCAAACATTTGGGCAGAGGAATCATGTGTGCTTGAAAGAGGGCT
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G33420.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------aatgcgaaatcctgcctacatttgaattgaaaaatattcgttgtactttatcttggcataactcacatgtga-gtgttccatctttgttcgtattgtgtagGAAGAGAAAGCTATTGAACGGGGGATTCTCCCATTACTCCAACGTGCAACCTTGGTTCAGACTTTTGGACAAAGGAACCATGTGTGCTTGAATGAGGGTT
|| | || || | || || | || | |||| || || || || | ||| | | || | || || | | | ||||||||||| || |||||| | |||||||| || |||| | ||||| ||||||||||| || |||||||| || || |||||||||||||| ||||| |
gtacaagatttttcacatatcactgttagttttacttaagtatttgaaccaattatatgctgtcttgagaagtaacaaagaaaagcagtttagatgtaggatacctatccaaaagtaacacataacatgcattttattcattattttgttctagGAAGAGAAGGCAATTGAAAGAGGGATTCTTACACTACTACGGCGTGCTACCTTGGTTCAAACATTTGGACAGAGAAATCATGTGTGCTTGAAAGAGGGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttatcttggcataactcacatgtgagtgttccatctttgttcgtattgtgtagGAAGAGAAAGCTATTGAACGGGGGATTCTCCCATTACTCCAACGTGCAACCTTGGTTCAGACTTTTGGACAAAGGAACCATGTGTGCTTGAATGAGGGTT
aactcac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgcgaaatcctgcctacatttgaattgaaaaatattcgttgtactttatcttggcataactcacatgtgagtgttccatctttgttcgtattgtgtagGAAGAGAAAGCTATTGAACGGGGGATTCTCCCATTACTCCAACGTGCAACCTTGGTTCAGACTTTTGGACAAAGGAACCATGTGTGCTTGAATGAGGGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - -tcctgcc
- - - - - - - - - - - - - - -aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcacatg