Sequence
atgc intronic sequence ATGC exonic sequencegtctgtaattagatttgttgattggaaattatgtttgtttgacacttctgtaaccgtatgcgaatgcacttgcttatgcggtagtgatctaatcctttttccatttcagGTCAGAGATGGCATGCGATTTGTTGAAGTGGTTCTGTATGAACCTGATAAACATGTTGTTGCATTAGCAGATGCATATTTCTTCCCCCCTTTCCAACCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G18810.2 (Glycine max), 3'ss of exon 2
gtctgtaattagatttgttgattggaaattatgtttgtttgacacttctgtaaccgtatgcgaatgcacttgcttatgcggtagtgatctaatcct-ttttccatttcagGTCAGAGATGGCATGCGATTTGTTGAAGTGGTTCTGTATGAACCTGATAAACATGTTGTTGCATTAGCAGATGCATATTTCTTCCCCCCTTTCCAACCAT----------------------------------------------------------------------
||| | | || | || ||| | |||||| | ||||| || ||||| | ||| | || || |||||| ||||||||||| | ||||||||||||||||| || |||||||||||||
--------------------------------------------------------------------------------tcctccctctggttgtattatgtgttacagcttagagatagtatgcgcttcattgaaatagttttactggagccagataaaaatgttgttgcactggcagATGCATATTTCTTTCCACCTTTCCAACCATCATTACTTCCAAGAGCTAGAGGAGGACCTCTGATTCCAGCTAAACTCCCTCCAAGATGTGCCAGGCTTGT
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 2
------gtctgtaattagatttgttgat-tggaaat-tatgtttgtttg-acacttctgtaaccgtatgcgaat-------gcacttgcttatgcggtagtg-----atctaatcct-ttttccatttcagGTCAGAGATGGCATGCGATTTGTTGAAGTGGTTCTGTATGAACCTGATAAACATGTTGTTGCATTAGCAGATGCATATTTCTTCCCCCCTTTCCAACCAT
|| | ||| ||| ||| |||| || ||| |||| | || | || || || | | || |||||| | ||| | | || | || ||| | |||||| | ||||| || ||||| | ||| | || || |||||| ||||||||||| | ||||||||||||||||| || |||||||||||||
gttgtcaactatgattttttttaatgaagtggatatacttgtagatttggatggttttagaaaattaaatgagttgaagtagtgattacttatgatatctctcctccctctggttgtattatgtgttacagCTTAGAGATAGTATGCGCTTCATTGAAATAGTTTTACTGGAGCCAGATAAAAATGTTGTTGCACTGGCAGATGCATATTTCTTTCCACCTTTCCAACCAT
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 1
-----gtctgtaattagatttgttgattggaaattatgtttgt-ttgacacttctgtaaccgtatgcgaatgcacttgctt-atgcgg-------tagtgatct----------aatcctttttccatttca--gGTCAGAGATGGCATGCGATTTGTTGAAGTGGTTCTGTATGAACCTGATAAACATGTTGTTGCATTAGCAGATGCATATTTCTTCCCCCCTTTCCAACCAT
| || || | || | | |||| || ||| ||||| || | ||| | || | | | || || || |||| ||| | ||| || | | | ||||||| | || || ||| ||||||| ||| ||| ||||| |||||||||||||||||| | |||||||| |||||||| | |||||||||||||
gttaactatgccatgaaatgt-tcgattaaaagatatatttgtatttttatacagataattaaaattgagtctatgtattttgagcaattgtccctaatgattctatttccctcaattgtctttatatcttatagCTCAGAGACAGTATCCGCTTTATTGAAGTAGTTTTGTTGGAACCAGATAAACATGTTGTTGCACTGGCAGATGCTTATTTCTTTTCTCCTTTCCAACCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtatgcgaatgcacttgcttatgcggtagtgatctaatcctttttccatttcagGTCAGAGATGGCATGCGATTTGTTGAAGTGGTTCTGTATGAACCTGATAAACATGTTGTTGCATTAGCAGATGCATATTTCTTCCCCCCTTTCCAACCAT
atctaat putative branch site (score: 3)
tcctttttccatttc CT-rich tract
atctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgtaattagatttgttgattggaaattatgtttgtttgacacttctgtaaccgtatgcgaatgcacttgcttatgcggtagtgatctaatcctttttccatttcagGTCAGAGATGGCATGCGATTTGTTGAAGTGGTTCTGTATGAACCTGATAAACATGTTGTTGCATTAGCAGATGCATATTTCTTCCCCCCTTTCCAACCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG