Sequence
atgc intronic sequence ATGC exonic sequence...tatctgttttcttggcaggagcttaagttggtataagccctgggtcaagtgttctttataatcattcatcacaagagagcttctgatttttctttcacagTGCCAGTAGCTGTGTTCATTCTCGGAGTAGCAGCCGGCCTTGAAATTATGAGCTGCAGAATGCTCTTAATAATGTCAGTGATCAGTTTTGGAGTTCTAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G18730.1 (Glycine max), 3'ss of exon 6
tatctgttttcttggcaggagcttaagttggtataagccctgggtcaagtgttctttataatcattcatcacaagagagctt-----ctgatttttctttcacagTGCCAGTAGCTGTGTTCATTCTCGGAGTAGCAGCCGGCCTTGAAATTATGAGCTGCAGAATGCTCTTAATAATGTCAGTGATCAGTTTTGGAGTTCTAGT
| | | | | ||| | | || | | | | | | ||| | | | || || | || | | || || |||||||||| |||||||| || | || |||||||| || || ||||| | ||||||| || |||||| ||||| ||||||||||| |||||||| ||||||||
---gtactatagtaattatatattatatatatttacacgttactttt--tctccaatatgacaactaattgcataatgctttgattcttcaattgtcaatcacagTGCCTGTAGCTGTTTTTGTGCTTGGAGTAGCTGCAGGACTTGAGGTAATGAGCTACAAAATGCTATTAATCATGTCAGTGATTAGTTTTGGTGTTCTAGT
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G14410.1 (Arabidopsis thaliana), 3'ss of exon 4
tatctgttttcttggcaggagcttaagttggtataagccctgggtcaagtgttctttataatcattcatcacaagagagc-ttctgatttttctttcacagTGCCAGTAGCTGTGTTCATTCTCGGAGTAGCAGCCGGCCTTGAAATTATGAGCTGCAGAATGCTCTTAATAATGTCAGTGATCAGTTTTGGAGTTCTAGT
|| || | ||| | ||||| | | || | | ||||| | || | || |||| | ||||||| || |||||||| ||||| |||||||| || || |||||||| ||||||||||| ||||| || |||||||| | || |||||||| ||| ||||
--gtaagaaactgttcatgctcttggttcctcataagtcttatgtt---tacttcttatatctgactaacaatgtacagtattcttcaaccatacttgcagTGCCTGTTGCTGTGTTTATTCTTGGAGTAGCTGCTGGACTTGAAATGATGAGCTGCAGGATGCTTTTGATAATGTCTATCATAAGTTTTGGTGTTTTAGT
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G53660.1 (Arabidopsis thaliana), 3'ss of exon 4
tatctgttttcttggcaggagcttaagttggtataagccctgggtcaagtgttctttataatcattcatcacaagagagcttctgatttttctttcacagTGCCAGTAGCTGTGTTCATTCTCGGAGTAGCAGCCGGCCTTGAAATTATGAGCTGCAGAATGCTCTTAATAATGTCAGTGATCAGTTTTGGAGTTCTAGT
| | || |||||| | | | | | ||| |||||| || ||| | || | ||| ||||||| || |||||||| || || ||||| | || |||||||| |||||||||| ||||| || ||||||||||| || |||||||| ||| ||||
--------------gtaagaacttaagctcttcctgatctcattt---gcgttacttataaatttt-------agataatcaagaatcatatttttgcagTGCCTGTTGCTGTGTTTATACTTGGAGTTTGTGTTGGGCTTGAAATAATGAGCTGCAAGATGCTTTTGATAATGTCAGTCATAAGTTTTGGCGTTTTAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caagtgttctttataatcattcatcacaagagagcttctgatttttctttcacagTGCCAGTAGCTGTGTTCATTCTCGGAGTAGCAGCCGGCCTTGAAATTATGAGCTGCAGAATGCTCTTAATAATGTCAGTGATCAGTTTTGGAGTTCTAGT
ttctgat putative branch site (score: 3)
cttctgatttttcttt CT-rich tract
ttctttataatcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatctgttttcttggcaggagcttaagttggtataagccctgggtcaagtgttctttataatcattcatcacaagagagcttctgatttttctttcacagTGCCAGTAGCTGTGTTCATTCTCGGAGTAGCAGCCGGCCTTGAAATTATGAGCTGCAGAATGCTCTTAATAATGTCAGTGATCAGTTTTGGAGTTCTAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - -ggcagga
- - - - - - - - - - - - - - - - -taagccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttctga