Sequence
atgc intronic sequence ATGC exonic sequence...tgtaaaagaatatgatgagaagcaattcaacagtacctgtaagataaattgaatcttgatcatggagaaagaaagtttcatttctgttaatatctttcagGCAGAGCGTGATGGTTCAAATGAATATAGTAACTATCAGCCGGGTTCACTCAACACGACAGATCAACTCATAAAGGACTTGCCCAACTTTGACATAGTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g01400.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G37180.1 (Glycine max), 3'ss of exon 6
tgtaaaagaatatgatgagaagcaattcaacagtacctgtaagataaattgaatcttgatcatggagaaagaaagtttcatttctgttaatatctttca-gGCAGAGCGTGATGGTTCAAATGAATATAGTAACTATCAGCCGGGTTCACTCAACACGACAGATCAACTCATAAAGGACTTGCCCAACTTTGACATAGTTT-------------------------------------------------------------
||||| || | | | || | || ||| | |||| ||| |||||||||||||||||| ||||| | | ||||| || ||||| |||||||| ||||| |||||||||||||| ||| | | | ||||| ||||
------------------------------------------------------------catgggaaaggtagtatacacatttg--aatgttcttcaaggctgagcgtgatggttcaaattaatatgttgattatcaacctggttctctcaacaccacagACCAACTCATAAAGGATTTGGACTATTACGACATTGTTTTCCACATAGAAGATATGCCTTATGCAAATGGATACACCTCACAGGGAGACCAATTCACAGC
upper sequence: Vv17s0000g01400.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G17860.1 (Glycine max), 3'ss of exon 8
-------tgtaaaagaatatgatgagaagcaattcaacagtacctgtaagataaat---tgaatcttgatcatggagaaagaaa-------------gtttcatttctgtt--aatatctttcagGCAGAGCGTGATGGTTCAAATGAATATAGTAACTATCAGCCGGGTTCACTCAACACGACAGATCAACTCATAAAGGACTTGCCCAACTTTGACATAGTTT
| ||||||| ||| | || | | | | || | | | || || ||| || | ||||| || ||| ||| ||| |||| || || || |||| |||||||||||||||||||||||| | | ||||| |||||||| || ||||| ||||| |||||| | ||||| || || | |||||| ||||
gtagtattcaaaaagaaaatg-tatatagtattcccaaagaaaatatcgaatgaaagcacaaattttaagcatggctaataaaatggggaatatttaatttattttttgtttgcatgtcctttagGCTGAGCGTGATGGTTCAAATGAATATGCTGATTATCAACCGGGTTCTCTAAACACCACAGACCAACTCGTCAAGGATTTAGAAAATTATGACATTGTTT
upper sequence: Vv17s0000g01400.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G50400.1 (Arabidopsis thaliana), 3'ss of exon 8
tgtaaaagaatatgatgagaagcaattcaacagtacctgtaagataa-attgaatc-ttgatcatggagaaagaaagtttcatttctgt-taatat---ctttcagGCAGAGCGTGATGGTTCAAATGAATATAGTAACTATCAGCCGGGTTCACTCAACACGACAGATCAACTCATAAAGGACTTGCCCAACTTTGACATAGTTT
| | | | || || | || |||| | || | | | | || || | | | |||||| || ||| |||||| ||||||||||| || || | | | |||||||| ||||| |||||||| || ||||||||||| ||||||||| ||| ||||||| ||||
------------------gtacttgcttgttgttttctatataaaaacattgccttgttagtgtttcctctcgggacttatatgtttctgtaatatgtatttgaagGGAGAGCGGGATGGTTCAAACGAGTACAATGATTATCAGCCTGGTTCTCTCAACACCACTGATCAACTCATCAAGGACTTGAAGAACATTGACATTGTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattgaatcttgatcatggagaaagaaagtttcatttctgttaatatctttcagGCAGAGCGTGATGGTTCAAATGAATATAGTAACTATCAGCCGGGTTCACTCAACACGACAGATCAACTCATAAAGGACTTGCCCAACTTTGACATAGTTT
tgttaat putative branch site (score: 3)
tatctttc CT-rich tract
atttctgttaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtaaaagaatatgatgagaagcaattcaacagtacctgtaagataaattgaatcttgatcatggagaaagaaagtttcatttctgttaatatctttcagGCAGAGCGTGATGGTTCAAATGAATATAGTAACTATCAGCCGGGTTCACTCAACACGACAGATCAACTCATAAAGGACTTGCCCAACTTTGACATAGTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- -aaaagaa
- - - - - - - - - gaagcaa
- - - - - - - - - - - - - - - - -tacctgt
- - - - - - - - - - - - - - - - - - - - aagataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagaaa