Sequence
atgc intronic sequence ATGC exonic sequencegtaattacatgatgtttttgtctttcttgtccactatatatatatatatatcttctttctgtttggttgattataaatgtacttttaatgggcatagcatacaaacacatttgattacttaataaactgagatgtccaattcagccactgatatatgccgcatatgcgtatagGTTGCAGACACACAGAAACATGCAGATATGGCTGCAAACCTTGCAGTGGTTGATTATGATGTGGGAAATTTGGAACTGCCCATTTTATCTGTAGAAGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G44000.1 (Glycine max), 3'ss of exon 3
gtaattacatgatgtttttgtctttcttgtccactatatatatatatatatcttctttctgtttggttgattataaatgtacttttaatg---ggcatagcatacaaacacatttgattacttaataaactga-gatgtccaattcagccactgatatatgccgcatatgcg-tatagGTTGCAGACACACAGAAACATGCAGATATGGCTGCAAACCTTGCAGTGGTTGATTATGATGTGGGAAATTTGGAACTGCCCATTTTATCTGTAGAAGAGG
|| || |||| | ||| | || ||| ||| || | ||||| | | ||| | ||||| || || ||| ||||||||||||| || |||||| |||||||||| ||||||||| || | |||||||| | | | | |||| | |||| || ||| || |||| ||||| |
----------------------------------------------------------------------------gtgagctcttaaagtccaacattgtatgagcttctgtttcatttgtttggagactgataaaattaaatgcttccactt-tagtcaccaagtatcttctatagGTTGCAGATACTCAGAAAAATGCAGATATTGCTGCAAACTCAGCTATTGTTGATTACGGTCTTGAAAATCTTGAACCACCTATTCTAACTGTGGAAGATG
upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 3
gtaattacatgatgtttttgtctttcttgtccactatatatatatatatatcttctttctgtttggttgattataaatgtacttttaatgggcatagcatacaaacacatttgattacttaataaactgagatgtccaattcagccactgatatatgccgcatatgcgtatagGTTGCAGACACACAGAAACATGCAGATATGGCTGCAAACCTTGCAGTGGTTGATTATGATGTGGGAAATTTGGAACTGCCCATTTTATCTGTAGAAGAGG
| | ||||| || ||| | | | | | | |||| || | | | | ||||| | | | | ||| ||| | || ||| ||| || || | | |||| ||||| || ||||||| ||||||||||||||||||| || || |||||||||||| |||| | |||| || ||| |||| || ||||| |
-----------------------------------gtgagttcttatatccctcattttgatccaataaggtttgagcttctttttcatttctttgg-----aga-----ttgat-atgtgaaatacta------ccatcttagtcaccgatcaataccttcttt------agGTCGCAGATACTCAGAAACTTGCAGATATGGCTGCAAACTCAGCTGTTGTTGATTATGATACCAAAAATCTTGAACCACCTATTCTATCCGTTGAAGATG
upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G27150.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaattacatgatgtttttgtctttcttgtccactatatatatatatatatcttctttctgtttggttgattataaatgtacttttaatgggcatagcatacaaacacatttgattacttaataaactgagatgtccaatt---cagccactgatatatgccgcatatgcgtatagGTTGCAGACACACAGAAACATGCAGATATGGCTGCAAACCTTGCAGTGGTTGATTATGATGTGGGAAATTTGGAACTGCCCATTTTATCTGTAGAAGAGG
|| | | || | | | || ||||| | | || | | | || ||| || | ||| |||||||||||||||||||||||||||| ||||||||||| |||||||| ||||| |||||| ||||| |||| || || ||| |||| ||||| |
---------------------------------------------------------------------------------------------gtaac-tccagtttcctcttcttttttaattcttgctcgtatttcgttgcgtatctagagaagtatatggcttttgc----agGTTGCAGACACACAGAAACATGCAGACATGGCTGCAAAACTTGCAGTAGTTGAGTATGATACAAAGAATTTAGAACAACCGATATTAACTGTCGAAGATG
upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G04580.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaattacatgatgtttttgtctttcttgtccactatatatatatatatatcttctttctgtttggttgattataaatgtacttttaatgggcatagcatacaaacacatttgattacttaataaactgagatgtcca--attcagccactgatatatgccgcatatgcgtatagGTTGCAGACACACAGAAACATGCAGATATGGCTGCAAACCTTGCAGTGGTTGATTATGATGTGGGAAATTTGGAACTGCCCATTTTATCTGTAGAAGAGG
|| | ||| ||| | | ||| | || ||| | | || || |||| ||| | | | | | || || | |||||||||||||||| || |||||||||||||| ||| |||||||||| ||||| || ||| | ||| | | | || | |||||||| || || |
------------------------------------------------------------gtaagtccaatttctaatacattcccaatccatccaccaccgaaataattcctgcatctctatcaactttctcgtctttcttctaactcttagtccattttttatgacctatcagGTTGCAGACACACAAAAGCATGCAGATATGGCAGCACACCTTGCAGTAGTTGAGTACGATTCAAGGAATATAGGAACACCAGTATTATCTGTGGAGGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaataaactgagatgtccaattcagccactgatatatgccgcatatgcgtatagGTTGCAGACACACAGAAACATGCAGATATGGCTGCAAACCTTGCAGTGGTTGATTATGATGTGGGAAATTTGGAACTGCCCATTTTATCTGTAGAAGAGG
cactgat putative branch site (score: 3)
tgatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattacatgatgtttttgtctttcttgtccactatatatatatatatatcttctttctgtttggttgattataaatgtacttttaatgggcatagcatacaaacacatttgattacttaataaactgagatgtccaattcagccactgatatatgccgcatatgcgtatagGTTGCAGACACACAGAAACATGCAGATATGGCTGCAAACCTTGCAGTGGTTGATTATGATGTGGGAAATTTGGAACTGCCCATTTTATCTGTAGAAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG