Sequence
atgc intronic sequence ATGC exonic sequencegtatgttcttatccttcaaaatgttaaatagaactttctcacacaacatacttctgactacctgcatgccttgccagATGTTTGATATTGAGAGTGAATGGGGAGCTTTCACTACTTGACCTGGATGATGGACGTGAAAGAGAGCTCACGGATTCTGTTGAATTATTTTGGGTTACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 9
---------------------gtatgttcttatccttcaaaatgttaaatagaactttctcacacaacatacttctgactacctgcatgccttgcc--agATGTTTGATATTGAGAGTGAATGGGGAGCTTTCACTACTTGACCTGGATGATGGACGTGAAAGAGAGCTCACGGATTCTGTTGAATTATTTTGGGTTACC
| | | | || | | | | | || | | || | | | || ||| ||||||||||||||||||| ||||||||||||||||| |||||| ||||||||||||| || ||| | ||||| ||||| |||||| |||||||||| |||
gtgtaactagaatatgaggatggaagcattcatgcgtggggaggggggggggggggttatactttcatatgactttcctcatgaaagtgatttgttgtagATGTTTGATATTGAGAGCAAATGGGGAGCTTTCACTTCTTGACTTGGATGATGGACGGGAGAGAAATCTCACTGATTCAGTTGAACTATTTTGGGTCACC
upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA09G39270.1 (Glycine max), 3'ss of exon 9
---------------------gtatgttcttatc---cttcaaaatgttaaatagaactttctcacacaacatacttctgactacctgcatgccttgccagATGTTTGATATTGAGAGTGAATGGGGAGCTTTCACTACTTGACCTGGATGATGGACGTGAAAGAGAGCTCACGGATTCTGTTGAATTATTTTGGGTTACC
| | | | | | | | | || || | | | || | | || ||| ||||||||||||||||||| ||||||||||||||||| |||||| ||||||||||||| || ||| | || || ||||| |||||| |||||||||| |||
atgtaactagaatactaggatggaagcattcacggggggttgggggggggggggggttatactttcatatgactttcctcatgaaagtgatttgttgt-agATGTTTGATATTGAGAGCAAATGGGGAGCTTTCACTTCTTGACTTGGATGATGGACGGGAGAGAAACCTTACTGATTCAGTTGAACTATTTTGGGTCACC
upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G28350.2 (Arabidopsis thaliana), 3'ss of exon 9
gtatgttcttatccttcaaaatgttaaatagaactttctcacacaacatacttctgactacctgca--tgccttgccagATGTTTGATATTGAGAGTGAATGGGGAGCTTTCACTACTTGACCTGGATGATGGACGTGAAAGAGAGCTCACGGATTCTGTTGAATTATTTTGGGTTACC
| ||| | | | || || | || | | |||| | | ||| | || |||||| | ||| |||||| ||||||||||||||||| ||||| ||| ||||||||| || || || || || || || |||||| |||||||||| ||
-------gtaatcatcaatagagtagaacatcctttcggtttatgctgtcattctaattgccttttgtggtctccgtagATGTCTTATACTGAGAGGAAATGGGGAGCTTTCACTTCTTGATTTGGTTGATGGACGAGAGAGGGAACTTACAGACTCAGTTGAACTATTTTGGGTGACA
upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatgttcttatccttcaaaatgttaaatagaactttctcacacaacatacttctgactacctgcatg-ccttgccagATGTTTGATATTGAGAGTGAATGGGGAGCTTTCACTACTTGACCTGGATGATGGACGTGAAAGAGAGCTCACGGATTCTGTTGAATTATTTTGGGTTACC
| ||| | | | || |||| || | | |||| | | ||| || || |||||| | ||| |||||| ||||||||||||||||| ||||| ||| ||||||||| || || || || || || || |||||| |||||||||| ||
-------gtaatcatcaatagagtagaatatcctttcagtttatgctgtcattctaattgcctttgtggtctccatagATGTCTTATACTGAGAGGAAATGGGGAGCTTTCACTTCTTGATTTGGTTGATGGACGAGAGAGGGAACTTACAGACTCAGTTGAACTATTTTGGGTGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaaatagaactttctcacacaacatacttctgactacctgcatgccttgccagATGTTTGATATTGAGAGTGAATGGGGAGCTTTCACTACTTGACCTGGATGATGGACGTGAAAGAGAGCTCACGGATTCTGTTGAATTATTTTGGGTTACC
ttctgac putative branch site (score: 2)
ccttgcc putative PPT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttcttatccttcaaaatgttaaatagaactttctcacacaacatacttctgactacctgcatgccttgccagATGTTTGATATTGAGAGTGAATGGGGAGCTTTCACTACTTGACCTGGATGATGGACGTGAAAGAGAGCTCACGGATTCTGTTGAATTATTTTGGGTTACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA