Sequence
atgc intronic sequence ATGC exonic sequencegtatgtttatttaatccctccttgcttttatcttctcttattatcaaagcaaatattattttgagcatatccaggtgattaaatgctccttacctgcagGGTGGCAATCCTTTGGATTTCAAACTTGGACATGCAGCTTCAGTTAGCGTCCAGTCTACTTCCCTCACAGATCAGCATCCTGAACATATTGTTACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G475362_T01 (Zea mays), 3'ss of exon 3
gtatgtttatttaatccctccttgcttttatcttctcttattatcaaagcaaatattattttgagcatatccaggtgattaaatgctccttacctgcagGGTGGCAATCCTTTGGATTTCAAACTTGGACATGCAGCTTCAGTTAGCGTCCAGTCTACTTCCCTCACAGATCAGCATCCTGAACATATTGTTACCAG
| | | ||| | | | || || | ||| | | || | | | || || | || || ||||||| |||||||| ||||||||||||||||| |||| |||||| |||| || ||||| ||||| | ||||| ||| ||||||| | ||| | ||
-----------------gtttgcattgtcatcct-tatggtttgcacattgaatttgcgtcagaacttttttccttgtttgtttacttattgt-tgcagGGAGGCAATCCCTTGGATTTCAAACTTGGCCATGTAGCTTCCCTTAGTGTACAGTCCACTTCTGTGACAGAACAGATAGCTGAACAAAATGTGATAAG
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G440943_T01 (Zea mays), 3'ss of exon 2
gtatgtttatttaatccctccttgcttttatcttctcttattatcaaagcaaatattattttgagcatatccaggtgattaaatgctccttacctgcagGGTGGCAATCCTTTGGATTTCAAACTTGGACATGCAGCTTCAGTTAGCGTCCAGTCTACTTCCCTCACAGATCAGCATCCTGAACATATTGTTACCAG
| | | | ||| | | | || || | ||| | | || | | | || || | || || ||||||| |||||||| ||||||||||||||||| |||| |||||| |||| || ||||| ||||| | ||||| ||| ||||||| | ||| | ||
-----------------gtttgcgttgtcatcct-tatggtttgcacactgaatttgcgtcagaacttttttccttgtttgtttacttattgt-tgcagGGAGGCAATCCCTTGGATTTCAAACTTGGCCATGTAGCTTCCCTTAGTGTACAGTCCACTTCTGTGACAGAACAGATAGCTGAACAAAATGTGATAAG
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G36660.1 (Glycine max), 3'ss of exon 3
gtatgtttatttaatccctccttgcttttatcttctcttattatcaaagcaaatattattttgagc-atatccaggtgattaaatgctccttacctgcagGGTGGCAATCCTTTGGATTTCAAACTTGGACATGCAGCTTCAGTTAGCGTCCAGTCTACTTCCCTCACAGATCAGCATCCTGAACATATTGTTACCAG
|| | | ||| | || | ||||| || ||| || | | | | | | || |||| | | | |||| || ||||||| || ||||||||||| || || | || |||| ||||||||||| || ||||||||||| ||||| |||||||||| || || |||| |||||
----------gtatgacagctttgttcttctgcaatcttac-attaaacaaattttcaatgtaaatgatgaccagctcagttg-tgctttgtaattgcagGGAGGGAATCCTTTGGACTTTAAGTTAGGGAATGCTGCTTCAGTTAGTGTTCAGTCTACTTCACTCACTGATCAGCATCAGGAGCAGTTTGTGACCAG
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G46710.1 (Glycine max), 3'ss of exon 2
gtatgtttatttaatccctccttgcttttatcttctcttattatcaaagcaaatattattttgagcatatccaggtgattaaatgctccttacctgcagGGTGGCAATCCTTTGGATTTCAAACTTGGACATGCAGCTTCAGTTAGCGTCCAGTCTACTTCCCTCACAGATCAGCATCCTGAACATATTGTTACCAG
|| | | ||| | || | ||||| | | || | || | | || |||| | | |||| || ||||||| || ||||||||||| || || | || ||| ||||||||||| || ||||||||||| ||||| |||||||| | || || |||| |||||
----------gtatgacagctttgttcttctgcattcttactttaaacaatttttccatgtaaatgatgaccagctcggtgg-tgctttgtaattgcagGGAGGGAATCCTTTGGACTTTAAGTTAGGGAATGGTGCTTCAGTTAGTGTTCAGTCTACTTCACTCACTGATCAGCACCAGGAGCAGTTTGTGACCAG
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G14060.1 (Glycine max), 3'ss of exon 2
gtatgtttatttaatccctccttgcttttatcttctcttattatcaaagcaaatattattttga-gcatatccaggtgattaaatgctccttacctgcagGGTGGCAATCCTTTGGATTTCAAACTTGGACATGCAGCTTCAGTTAGCGTCCAGTCTACTTCCCTCACAGATCAGCATCCTGAACATATTGTTACCAG
| | ||| ||||| | ||| ||| | | | | || ||||| | | || ||| | | || || |||||||||| |||||| |||| || || ||| |||| ||||||||||| || ||||||||||| ||||| ||||||| || ||| || |||| |||||
---------------gtatgaaagttttgatcttttgc-att-tcatatctcacaatactttgatgtaaatgatggtcacctg-tactttgtaagtgcagGGTGGGAATCCTCTGGACTTTAAGTCTGGGAATGCTGCTTCAGTTAGTGTTCAGTCTACTTCACTCACTGATCAGCTTCATGAGCAGTTTGTGACCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaagcaaatattattttgagcatatccaggtgattaaatgctccttacctgcagGGTGGCAATCCTTTGGATTTCAAACTTGGACATGCAGCTTCAGTTAGCGTCCAGTCTACTTCCCTCACAGATCAGCATCCTGAACATATTGTTACCAG
tccttac putative branch site (score: 2)
ctccttacct CT-rich tract
aaatattattttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtttatttaatccctccttgcttttatcttctcttattatcaaagcaaatattattttgagcatatccaggtgattaaatgctccttacctgcagGGTGGCAATCCTTTGGATTTCAAACTTGGACATGCAGCTTCAGTTAGCGTCCAGTCTACTTCCCTCACAGATCAGCATCCTGAACATATTGTTACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA