Sequence
atgc intronic sequence ATGC exonic sequencegtcagatgagctaatttctcgcaattgattttgacctttacagaaccttcaactttgttttttcctttagctgactgtttatttttcagAGATATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g58090.1 (Oryza sativa), 3'ss of exon 9
gtcagatgagctaatttctcgcaattgattttgacctttacagaaccttcaactt--tgttttttcctttagctgac--tgtttattttt--cagAGATATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG
| ||||| | |||| | | | | | | ||| | | | | |||| || | |||| |||||||||||||| || || || ||||| || ||||| || |||||||| |||||||| |||||||||||||||||||| || || | ||||| | ||||
---------gtatttttctgaagaacaatttccatgtatccggtgttctagttgagaagttctctatgtcaactgataacattaaattttggcagAGATATGGTCCTCCGCCCTCTTATCCTCAGCTGAAGATTCCTGGGCTAAATGCTCCGATTCCTCCTGGTGCTAGCTTCGGATACCGACCTGGGGAATGGG
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G31550.2 (Glycine max), 3'ss of exon 9
gtcagatgagctaatttctcgcaattgattttgacctttacagaaccttcaactttgttttttcctttagctgactgtttatttttcagAGATATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG
| | || | || | | ||| ||| || | || ||| |||| | | | | | | ||||||||||||||||||| |||||||||||||| ||||||||||||||||| |||||||||||||| || ||||| |||||||||||||||||||||||||| ||||
---------gtaatattatagcgtcttctgttgcatttttcatattctgttactggccttttgacccca-ttaaatatgattttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAAATCCCTGGACTGAATGCTCCTATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 9
gtcagatgagctaatttctcgcaattgattttgacctttacagaaccttcaactttgttttttcctttagctgactgtttatttttcagAGATATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG
|| | || | || ||| | ||||| | | | | | | | | |||| | | | | | ||||||||||||||||||| |||||||||||||| |||||||| |||||||| ||||||||||| || || ||||| |||||||||||||||||||||||||| ||||
gtaatatta--tagcctcttctgttgcatttt-----tcatattattctgttcctggcctttttaccccattaaatatgt-tttttcagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G25110.1 (Glycine max), 3'ss of exon 9
gtcagatgagctaatttctcgcaattgattttgacctttacagaaccttcaactttgttttttcctttagctgactgtttatttttcagAGATATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG
|| | || || ||| | ||| | || ||| | | | ||| || | | | | | | ||| || |||||||||||||| || ||||| ||||| |||||||| ||||| || |||||||||| ||||| ||||| ||||| |||||||| ||||| ||||| ||||
gtaatatcagtgtctttgtggcatgt-atgttgtattct--------tctggtcttggccctttcataacatcaattttt-ttcaccagAGATATGGTCCTCCTCCATCTTATCCTCATCTGAAGATCCCAGGCTTGAATGCTCCCATTCCCCCTGGAGCTAGTTTTGGTTACCATCCCGGTGGCTGGG
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G31350.1 (Glycine max), 3'ss of exon 5
gtcagatgagctaatttctcgcaattgattttgacctttacagaaccttcaactttgttttttcctttagctgactgtttatttttcagAGA---TATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG
|| | || || ||| | ||| | || ||| | | | | ||| | |||| | | | ||| || | |||||||| || |||| ||||| |||||||| ||||| || |||||||||| ||||| ||||| || || |||||||| ||||||||||| |
gtaatatcagtgtctttgtggcatgt-atgttgtattcttctggtcctg-------gccctttcataacatcaatttttttcaccagagGTATTGTATGGTCCTCCTTCATCTTATCCTCATCTGAAGATCCCAGGCTTGAATGCTCCCATTCCCCCTGGGGCAAGTTTTGGTTACCATCCTGGTGGCT---
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G21660.1 (Arabidopsis thaliana), 3'ss of exon 8
gtcagatgagctaatttctcgcaattgattttgacctttacagaaccttcaactttgttttttcctttagctgactgtttatttttcagAGATATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG
| | ||| | | | | || || ||| | || ||| || | || | | || ||| ||||||||||||||||| || || || |||||||||||||| ||||| |||||||||||||||| ||| ||||||||||||| |||| |||| || ||||
---------gtgagtttattgtgacttatctttttaattattctgattggaatcgagttgttcacctt---taatctcttctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAATGCTCCTATTCCAATTGGAGCTAGCTTTGGTTTTCATGCTGGCGGCTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctttacagaaccttcaactttgttttttcctttagctgactgtttatttttcagAGATATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG
agctgac putative branch site (score: 3)
tttatttttc putative PPT
tgtttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagatgagctaatttctcgcaattgattttgacctttacagaaccttcaactttgttttttcctttagctgactgtttatttttcagAGATATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG