Sequence
atgc intronic sequence ATGC exonic sequencegtatgtcagttctatgtgcacatttaagtaataatttgatgatttgagtcctttaaccttctagtgtcccatgtaattatattttaatggtttctgactacagAGAGGAACTTCTTCCCATGGCTGACATTGTAACCCCAAATTTGAAAGAGGCATCTGCTTTACTTGGTGGTCTACAACTGGAGACTGTTTCTGATATGTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g00320.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G29140.1 (Glycine max), 3'ss of exon 3
gtatgtcagttctatgtgcacatttaagtaataatttgatgatttgagtcctttaaccttctagtgtcccat--gtaattatattttaatggtttctgactacagAGAGGAACTTCTTCCCATGGCTGACATTGTAACCCCAAATTTGAAAGAGGCATCTGCTTTACTTGGTGGTCTACAACTGGAGACTGTTTCTGATATGTGT
| ||| | | | | | ||| ||| |||| | ||| | |||| || || | | | |||| ||| |||||| | ||| ||||| || ||||||||| |||||||||||||||||||| | ||||||||||| | ||||||||||||| | | |||| | | |||||||| ||| ||
---tttcatctttgttactgcttctaa--aattatttcaaaattcagatttattaataaaactgtagaaaattggctcctctcatttattggattctgagtgcagGGAGGAGCTGCTTCCCATGACTGACATTGTAACCCCAAATATAAAAGAGGCATCAGTTTTACTTGGTGGTGTGCCACTGAAATCAGTTTCTGACATGCGT
upper sequence: Vv12s0035g00320.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G20080.1 (Glycine max), 3'ss of exon 4
gtatgtcagttctatgtgcacatttaagtaataatttgatgatttgagtcctttaaccttctagtgtcccatgtaattatattt---taatggtttctgactacagAGAGGAACTTCTTCCCATGGCTGACATTGTAACCCCAAATTTGAAAGAGGCATCTGCTTTACTTGGTGGTCTACAACTGGAGACTGTTTCTGATATGTGT
| ||| | | | | ||| ||| |||| | ||| | | || || || | | | || || ||| | |||| | ||| ||||| || ||||||||| |||||||||||||||||||| | ||||||||||| | ||||||||||||| | | ||| | | |||||||| ||| |
---tttcatctttgttactgtttctaa--aattatttcaaaattcagatttatcaataaaactgtaggaaat-tggctccacttatttattggatcctgagtgcagGGAGGAGCTGCTTCCCATGACTGACATTGTAACCCCAAATATAAAAGAGGCATCAGTTTTACTTGGTGGTGTGCCGCTGAAATCAGTTTCTGACATGCGC
upper sequence: Vv12s0035g00320.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G22940.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgtcagttctatgtgcacatttaagtaataatttgatgatttgagtcctttaaccttctagtgtcccatgtaattatattttaatggtttctgactacagAGAGGAACTTCTTCCCATGGCTGACATTGTAACCCCAAATTTGAAAGAGGCATCTGCTTTACTTGGTGGTCTACAACTGGAGACTGTTTCTGATATGTGT
|| | | | |||| | | || || || || ||||| ||| | | | |||| |||| ||| | ||||||||| | | ||||||| | | || || || |||||||| | ||||||||| |||||||||| ||||||||||||| |||| | | | ||||||||| | || ||| |
----gtaaagcttttatgcatttgtt-gtcattatgtg----tttga---cttcagtgatttggtgtgttatgttgttaattaactatggtttcttattgcagAGAGAGATTACTACCAATTGCTGACATAATTACCCCAAATGTGAAAGAGGCTTCTGCTTTACTTGATGGTTTTCGGATTGAGACTGTTGCAGAAATGCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctttaaccttctagtgtcccatgtaattatattttaatggtttctgactacagAGAGGAACTTCTTCCCATGGCTGACATTGTAACCCCAAATTTGAAAGAGGCATCTGCTTTACTTGGTGGTCTACAACTGGAGACTGTTTCTGATATGTGT
ttctgac putative branch site (score: 2)
tttct CT-rich tract
atgtaattatatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtcagttctatgtgcacatttaagtaataatttgatgatttgagtcctttaaccttctagtgtcccatgtaattatattttaatggtttctgactacagAGAGGAACTTCTTCCCATGGCTGACATTGTAACCCCAAATTTGAAAGAGGCATCTGCTTTACTTGGTGGTCTACAACTGGAGACTGTTTCTGATATGTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA