Sequence
atgc intronic sequence ATGC exonic sequencegtaattcattgggttttgttatttgaaatttgaagggcattggacttttttggtttttaggttggtttcttatttctctgattgatttatgtattttcttaatgcagGAAGAACCCAAGGAAGAGAGTGATGATGACATGGGCTTTAGCTTGTTTGATTAGGAGCTTTTGATTTGGTTTGTCGCTAGTTTAGTCCTGTGTTAAATCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S49_284V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaattcattgggttttgttatttgaaatttgaagggcattggacttttttggtttttaggttggtttcttatttctctgattgatttatgtattttcttaatgcagGAAGAACCCAAGGAAGAGAGTGATGATGACATGGGCTTTAGCTTGTTTGATTAGGAGCTTTTGATTTGGTTTGTCGCTAGTTTAGTCCTGTGTTAAATCT---
| ||| ||| | || | || || | || ||| || | | | | | ||||| | | | | | | |||| | | ||||||||||| ||||| ||||||||||| ||||||||||| ||||||||||||||| || || |||| | | || | || || |
---ttgtgttgtaaattggtgaatgct-tgtgcagagtgtttcgttttctt--tcgtatatcttatattttattcgtatatcttacat-tatattgtaactttacagGAAGAACCGAAGGAGGAGAGTGATGACGACATGGGCTTCAGCTTGTTTGATTAGAGTTGCCCAAT--GGGTTGTGTTGGATCTCGTTC-ATGCCAAGTTCTGA
upper sequence: Vv15s0048g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S28_131V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaattcatt--gggttttgttatttgaaatttgaagggcattggacttttttggtttttaggttggtttcttatttctctgattgatttatgtattttcttaatgcagGAAGAACCCAAGGAAGAGAGTGATGATGACATGGGCTTTAGCTTGTTTGATTAGGAGCTTTTGATTTGGTTTGTCGCTA--GTTTAGTCCTGTGTTAAATCT
| ||| | | ||| | | | | | | | ||| |||| || | || || | | | | || | ||| || | | |||||| || || ||||||||||| |||||||||||||| |||||||||||||||||| | | | | || | | | | | | | | | | ||
--acttcgtcacgagttctatccatggcgcctccgcctgtgtcggatcttttca--ttctgggcatagttatcaataatgtgttc--tttgtgg---cgatgatcgcagGAGGAGCCAAAGGAAGAGAGCGATGATGACATGGGATTTAGCTTGTTTGATTAGATGATCATTTGTCAATTAAACACGACGGATGAATATTTTTTCTCAT--
upper sequence: Vv15s0048g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S152_152V6.1 (Physcomitrella patens), 3'ss of exon 3
--gtaattcattgggttttgttatttgaaatttgaagggcattggacttttttggtttttaggttggtttcttatttctctgattgatttatgtattttcttaatgcagGAAGAACCCAAGGAAGAGAGTGATGATGACATGGGCTTTAGCTTGTTTGATTAGGAGCTTTTGAT---TTGGTTTGTCGCTAGTTTAGTCCTGTGTTAAATCT
|| ||| |||| || ||| | | | | | | ||| ||||| | | || | || ||| ||||| |||||| || || ||||||||||||||||| |||||||| || || |||||||||||| | || || ||| | | || | || || |||| |
tctgaaggaattttagtttgcgatcaaaaactatgcgcatcctcaaacaggatttcccctgagttagtttcatttctcattatctggtttg---atttt------gcagGAGGAGCCGAAGGAAGAGAGTGATGACGACATGGGATTCAGTTTGTTTGATTAGAATTGCTTAATGGGTTGAGTGGGACCTTTTATATGCCAGTGTCGAC---
upper sequence: Vv15s0048g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ07677 (Selaginella moellendorffii), 3'ss of exon 3
gtaattcattgggttttgttatttgaaatttgaagggcattggacttttttggtttttaggttggt-ttcttatttctctgattgatttatgtatttt--cttaatgcagGAAGAACCCAAGGAAGAGAGTGATGATGACATGGGCTTTAGCTTGTTTGATTAGGAGCTTTTGATTTGGTTTGTCGCTAGTTTAGTCCTGTGTTAAATCT
| || ||| || || | ||| | ||| | | | ||| || |||| ||| | ||||| ||| | || |||||||| |||||||||||||||||||||||||| ||||||
-----------------------------------------------gtatgaatttgggggtgttactctggtctcttggctgaaattaggttttttggcttgaaacagGAGGAAGCGAAAGAAGAGAGCGATGATGACATGGGCTTTAGCTTGTTCGATTAG----------------------------------------------
upper sequence: Vv15s0048g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ07730 (Selaginella moellendorffii), 3'ss of exon 3
gtaattcattgggttttgttatttgaaatttgaagggcattggacttttttggtttttaggttggtttcttatttctctgattgatttatgtatttt--cttaatgcagGAAGAACCCAAGGAAGAGAGTGATGATGACATGGGCTTTAGCTTGTTTGATTAGGAGCTTTTGATTTGGTTTGTCGCTAGTTTAGTCCTGTGTTAAATCT
| | ||| |||| ||| | ||| | | | ||| || |||| ||| | ||||| ||| | || |||||||| || ||||||||||||||||||||||| ||||||
----------------------------------------------gtatgaatttgggggttttcctctggtctctgggctgaaattaggttttttggcttgaaacagGAGGAAGCGAAAGAAGAGAGCGACGATGACATGGGCTTTAGCTTGTTCGATTAG---------------------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttttaggttggtttcttatttctctgattgatttatgtattttcttaatgcagGAAGAACCCAAGGAAGAGAGTGATGATGACATGGGCTTTAGCTTGTTTGATTAGGAGCTTTTGATTTGGTTTGTCGCTAGTTTAGTCCTGTGTTAAATCT
tcttaat putative branch site (score: 3)
tattttctt CT-rich tract
attgatttatgtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcattgggttttgttatttgaaatttgaagggcattggacttttttggtttttaggttggtttcttatttctctgattgatttatgtattttcttaatgcagGAAGAACCCAAGGAAGAGAGTGATGATGACATGGGCTTTAGCTTGTTTGATTAGGAGCTTTTGATTTGGTTTGTCGCTAGTTTAGTCCTGTGTTAAATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT