Sequence
atgc intronic sequence ATGC exonic sequencegttcttatgcaacttgctcatttggttttctgttactctcctcgcactcgtttatggcttaccttctctagcttgtactgcagGCACGTTTCTTCTTCCAACAACTTGTATCAGGAGTCAGCTACTGTCATGCGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G081915_T01 (Zea mays), 3'ss of exon 2
---------------------------------------gttcttatgcaa-cttgctcatt--tggttttctgt--tactctcctcgcactcgtttat---ggcttaccttctctagcttgtactgcagGCACGTTTCTTCTTCCAACAACTTGTATCAGGAGTCAGCTACTGTCATGCGATG
| || ||| |||| || | | | | |||| |||| |||| | || || | | || | | ||||| |||||||| ||||||||||| ||||||| ||||||||||| ||| | |||
gtccgtctttctctcgctatcatcgaccctgcttgcttgctgctcgtgctgtcttgtgcactaattgctatctgcgccactcctgcttcactggactaatcaaactgtcaaagcccctttttcatttcagGCGCGTTTCTTTTTCCAACAACTCATATCAGGGGTCAGCTACTGCCATTCCATG
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G15330.1 (Glycine max), 3'ss of exon 3
gttcttatgcaacttgctcatttggttttctgttactctcctcgcactcgtttatggcttaccttctctagcttgtactgcagGCACGTTTCTTCTTCCAACAACTTGTATCAGGAGTCAGCTACTGTCATGCGATG
|||||||| ||||| ||| ||| | || || ||| | | | | || | | || | |||||||| || |||||||||||||||||| |||||||||| |||||||||||||| |||
gttcttatctgttgcattcattca--tttgtgtaatgctgct-gcatatgccttttatgtctgtttttt--tttatgctgcagGCGCGCTTCTTCTTCCAACAACTTATATCAGGAGTTAGCTACTGTCATGCAATG
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G29500.1 (Glycine max), 3'ss of exon 3
gttcttatgcaacttgctcatttggttttctgttactctcctcgcactc---gtttatggcttaccttctctagcttgtactgcagGCACGTTTCTTCTTCCAACAACTTGTATCAGGAGTCAGCTACTGTCATGCGATG
|||||| | | |||| |||| | | | | ||| | | ||| | | || || | |||||||||| |||||||||||||||||| ||||||| || |||||||||||||| |||
gttcttttctattcctttcatgcatttttgttgcagttctgttgcagttactgcttaccattaatgcctattatgttttgttgcagGCACGCTTCTTCTTCCAACAACTTATATCAGGGGTTAGCTACTGTCATGCAATG
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G01240.1 (Glycine max), 3'ss of exon 3
gttcttatgcaacttgctcatttggttttctgttactctcctcgcact---cgtttatggcttaccttctctagcttgtactgcagGCACGTTTCTTCTTCCAACAACTTGTATCAGGAGTCAGCTACTGTCATGCGATG
|||||||| | |||| |||| | | | | ||| | || ||| ||| | || || | |||||||||| |||||||||||||||||| ||||||| || |||||||||||||| |||
gttcttatctattcctttcatgcatttttgttgcagtgctgttgcagttaccgcttaccatttatgtctattatgttttgttgcagGCACGCTTCTTCTTCCAACAACTTATATCAGGGGTTAGCTACTGTCATGCAATG
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G33120.1 (Glycine max), 3'ss of exon 3
gttcttatgcaacttgctcatttggttttctgttactctcctcgcactcgtttatggcttaccttctctagcttgtactgcagGCACGTTTCTTCTTCCAACAACTTGTATCAGGAGTCAGCTACTGTCATGCGATG
|||||||| ||||| ||| ||| | || || | | | | | | || | | || | |||||||| || |||||||||||||||||| ||||||| || ||||| |||||||| |||
gttcttatcttttgcattcattca--tttgtgtaatgctgct-gtatatgccttttatgtctgttttttgttttatgctgcagGCGCGCTTCTTCTTCCAACAACTTATATCAGGGGTTAGCTATTGTCATGCAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgttactctcctcgcactcgtttatggcttaccttctctagcttgtactgcagGCACGTTTCTTCTTCCAACAACTTGTATCAGGAGTCAGCTACTGTCATGCGATG
ggcttac putative branch site (score: 3)
tttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcttatgcaacttgctcatttggttttctgttactctcctcgcactcgtttatggcttaccttctctagcttgtactgcagGCACGTTTCTTCTTCCAACAACTTGTATCAGGAGTCAGCTACTGTCATGCGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT