Sequence
atgc intronic sequence ATGC exonic sequencegtctttatctagctcttgtccgtgttttcataagaatttttgtagccaaaacttgtgttcctaaattgttttcttgcctgcagATCTATGAGATTTTCCAGCTTCTGCCAGAAAGAATCCAGGTGGGTGTTTTCTCTGCTACAATGCCCCCTGAGGTTCTTGAGATTACCAAGAAGTTCATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g00980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G72730.1 (Arabidopsis thaliana), 3'ss of exon 4
-----gtctttatctagctcttgtccgtgttttcataagaatttt--tgtagccaaaacttgtgttcctaaattgttttcttgcctgcagATCTATGAGATTTTCCAGCTTCTGCCAGAAAGAATCCAGGTGGGTGTTTTCTCTGCTACAATGCCCCCTGAGGTTCTTGAGATTACCAAGAAGTTCATGA
|||| | | ||| | | ||||| | | | | | ||| | | ||||| || | | | | | | ||||| || || || ||||||||||| || | | ||||| ||||||||||||||||||||||| || || | |||||||| || | |||||||||||
gtttaatcttgtttaatctcccattcacattttctttttctctctgataaaatcaagtcatttgttcttataatttgatttctctgtcagATATACGACATCTTCCAGCTTCTTCCTTCCAAGGTTCAGGTTGGTGTTTTCTCTGCTACAATGCCTCCCGAAGCCCTTGAGATCACAAGGAAGTTCATGA
upper sequence: Vv04s0008g00980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G13920.2 (Arabidopsis thaliana), 3'ss of exon 4
gtctttat-ctagctcttgtccgtgttttcataagaattt--ttgtagccaaaacttgtgttcctaaattgttttcttgcctgcagATCTATGAGATTTTCCAGCTTCTGCCAGAAAGAATCCAGGTGGGTGTTTTCTCTGCTACAATGCCCCCTGAGGTTCTTGAGATTACCAAGAAGTTCATGA
||| | | || || |||||| || | | | || ||| || |||| | | | | | | | ||||||||||| || ||||||||||| ||| || ||||| || ||||| ||||| || |||||||| || || | ||||||||| || | |||||||||||
----gtatgcaaatatttctcagtgtttcaattccattctcgttatagtttaa-cttgaatctcactggtttctgggttttttcagATCTATGACATATTCCAGCTTCTTCCACCAAAGATCCAAGTTGGTGTGTTCTCCGCAACAATGCCACCAGAAGCTCTTGAGATCACAAGGAAGTTCATGA
upper sequence: Vv04s0008g00980.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S383_1V6.3 (Physcomitrella patens), 3'ss of exon 3
gtcttta----tctagctcttgtccg-tgttttcataagaatttttgtagcc----------aaaacttgtgttcctaaattgttttct--tgcctgcagATCTATGAGATTTTCCAGCTTCTGCCAGAAAGAATCCAGGTGGGTGTTTTCTCTGCTACAATGCCCCCTGAGGTTCTTGAGATTACCAAGAAGTTCATGA
|| || | ||| | | | |||||| ||| | | || || | ||| | | | | | || | || | | ||||||| || || || || ||||| ||||| | | | || |||||||||||||||||||| ||||| ||||| | || ||||| || | |||||||||||
gtgttgagtggtctgagtatgtcgcactgttttgataggggtgttggtgactgttacggtgaaaaggccgcttacttgcagtgatgtccaatacgtgcagATTTACGACATCTTTCAGCTGCTGCCCCAGAAGCTTCAAGTGGGTGTTTTCTCTGCTACCATGCCTCCTGAAGCCCTCGAGATCACAAGGAAGTTCATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cataagaatttttgtagccaaaacttgtgttcctaaattgttttcttgcctgcagATCTATGAGATTTTCCAGCTTCTGCCAGAAAGAATCCAGGTGGGTGTTTTCTCTGCTACAATGCCCCCTGAGGTTCTTGAGATTACCAAGAAGTTCATGA
tcctaaa putative branch site (score: 2)
ttgttttcttgcct CT-rich tract
taaattgttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctttatctagctcttgtccgtgttttcataagaatttttgtagccaaaacttgtgttcctaaattgttttcttgcctgcagATCTATGAGATTTTCCAGCTTCTGCCAGAAAGAATCCAGGTGGGTGTTTTCTCTGCTACAATGCCCCCTGAGGTTCTTGAGATTACCAAGAAGTTCATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT