Sequence
atgc intronic sequence ATGC exonic sequence...acaacattttctaaattttcctattgttaccttattggcatttttattttctgaattctattagaatgccaataaatttaacaagatttttctgatgcagGTGTGTACTTCGTGGATGTGTGCCAAAGAAATTGCTTGTGTATGCTTCCAAATTCTCTCATGAATTTGATGAGAGTGGTGGTTTTGGATGGAAATTTGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0141g00390.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G172322_T02 (Zea mays), 3'ss of exon 1
-----acaacattttctaaattttcctattgttaccttattggcatttttattttctgaattctattagaatgccaataaatttaacaagatttttctgatgcagGTGTGTACTTCGTGGATGTGTGCCAAAGAAATTGCTTGTGTATGCTTCCAAATTCTCTCATGAATTTGATGAGAGTGGTGGTTTTGGATGGAAATTTGAA
| || | | |||| | | | | || || ||| | | | | | | || || | || ||||| ||| || || |||||||||||||| |||||||||||||| ||||| || ||||| | |||||| || ||||| ||| | |||| |||||||||| || |||
tctgcttggtacttagcagtcaattctatattgagccttgaaatatgctttatttgttgactttttatgtatatcacaatgctttt-----tttttgcatcacagATGCGTGCTTCGTGGATGTGTTCCAAAGAAATTGCTAGTGTACGCATCCAAGTACTCTCACGAGTTTGAAGAGTCTCGTGGATTTGGATGGACATATGAG
upper sequence: Vv07s0141g00390.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G03740.2 (Glycine max), 3'ss of exon 1
--acaacattttc-taaattttcctattgttaccttattggcatttt-tattttctgaattctattagaatgccaataaatttaacaagatttttctgatgcagGTGTGTACTTCGTGGATGTGTGCCAAAGAAATTGCTTGTGTATGCTTCCAAATTCTCTCATGAATTTGATGAGAGTGGTGGTTTTGGATGGAAATTTGAA
|| | ||| | || | || || || || | | || || ||| | || | | | ||| | ||| ||||| |||||| | || ||||||||||||||||| ||||| || |||||||| ||||| |||||||||||||| || ||| |||||||||||||| || |||
tctcactgtgttcattgatcgtgctgttcagtttttgttcctttctaatagcatccctatttttttttttaacttgtcatttttt----gtctttaccttgcagCTGTGTAATACGAGGATGTGTGCCAAAGAAGTTGCTGGTTTATGCTTCTAAATTTTCTCATGAATTTGAAGAAAGTAATGGTTTTGGATGGAGATATGAC
upper sequence: Vv07s0141g00390.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G16010.1 (Glycine max), 3'ss of exon 1
acaacattttctaaattttcctattgttac--cttattggcatttttattttctgaattctattagaatgc----caataaatt-taacaagatttttctgatgcagGTGTGTACTTCGTGGATGTGTGCCAAAGAAATTGCTTGTGTATGCTTCCAAATTCTCTCATGAATTTGATGAGAGTGGTGGTTTTGGATGGAAATTTGAA
|||| | | | |||| | | || | | ||| | || || ||| |||| | || || | | | ||| ||||| |||||| | || ||||||||||| ||||| ||||| || ||||| || ||||| |||||||||||||| || ||| |||||| ||||||| || |||
-------cttctcactgtgttcattgatcctgctgttcagtttttgttcctttctaaacgcattcaaatgtttttctttatcttgtcattttgtcttttccttgcagCTGTGTAATACGAGGATGTGTGCCGAAGAAGTTGCTGGTTTATGCATCTAAATTTTCTCATGAATTTGAAGAAAGTAATGGTTTCGGATGGAGATATGAC
upper sequence: Vv07s0141g00390.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G54660.1 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------------acaacattttctaaattttcct---attgttaccttattggcatttt---tattttctgaattctat-tagaatgccaataaatttaacaagatttt---tctgatgcagGTGTGTACTTCGTGGATGTGTGCCAAAGAAATTGCTTGTGTATGCTTCCAAATTCTCTCATGAATTTGATGAGAGTGGTGGTTTTGGATGGAAATTTGAA
| | | | | ||||| || | || | || | |||| |||| || || | | | | || | | || |||| | | |||||||||||| | | |||||||| |||||||| || ||||||||||| ||||||| | |||||| ||||| || ||| ||| ||||| ||||| | |||
gtaagatttcttccttcttgtggcttatatcgatagctagtgaatttgactttagtagtagctataccagaatttgaagcatttgcttgatgatttatggtttgattgtgttgtctactcatttttggttattttgcagGTGTGTATTGAGAGGATGTGTACCAAAGAAGTTACTTGTGTATGCATCCAAATACAGTCATGAGTTTGAAGACAGTCATGGATTTGGTTGGAAGTATGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttctgaattctattagaatgccaataaatttaacaagatttttctgatgcagGTGTGTACTTCGTGGATGTGTGCCAAAGAAATTGCTTGTGTATGCTTCCAAATTCTCTCATGAATTTGATGAGAGTGGTGGTTTTGGATGGAAATTTGAA
ttctgat putative branch site (score: 3)
tttttct CT-rich tract
aataaatttaacaaga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acaacattttctaaattttcctattgttaccttattggcatttttattttctgaattctattagaatgccaataaatttaacaagatttttctgatgcagGTGTGTACTTCGTGGATGTGTGCCAAAGAAATTGCTTGTGTATGCTTCCAAATTCTCTCATGAATTTGATGAGAGTGGTGGTTTTGGATGGAAATTTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - tgttacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacaaga