Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgatttattaattattaatctatcttacttattcttttaagtgcatttgtccgtgctggaagatctgatttgctactaactccaaaaagcatatcagacctgttgaatttaatttcaaacatgcttttaatagccaacagtaaatgttcatgcagGTTTGAGGGAATGGAGGCACCTAATTCAAAATCTTTTTTCACAGAGATAATTGCTTCAATTTCAGACATTAAGTTTGGAAAGGACGGAAGATACATACTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S301_53V6.1 (Physcomitrella patens), 3'ss of exon 8
gtgagtgatttattaattattaatctatcttacttattcttttaagtgcatttgtccgtgctggaagatctgatttgctactaactccaaaaagcatatcagacctgttgaatttaatttcaaacatgcttttaatagcca-acagtaaatgttcatgcagGTTTGAGGGAATGGAGGCACCTAATTCAAAATCTTTTTTCACAGAGATAATTGCTTCAATTTCAGACATTAAGTTTGGAAAGGACGGAAGATACATACTT
|| | | | ||| ||| | | | || |||| || | | | | ||| ||| | | || | | || |||| || ||||||||||| | ||| | ||| | | || |||||||||||||| |||||||||||||| || || ||||||| || | || | ||||| ||
------------------------------------------------gatatattacta--ggatgatttagaatttttctgtatccagaatg-------atcttaccaagtttg----caagtacttaagggacagtcgtattgttaatgagaattcagGTTTGAGGAGACTGAGCCTCCTGGAGCTAGGTCGTTTTTCACAGAGATTATTGCTTCAATTTCTGATATCAAGTTTGCAAGAGGTGGCCGGTACATTCTG
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S425_2V6.1 (Physcomitrella patens), 3'ss of exon 8
gtgagtgatttattaattattaatctatcttacttattcttttaagtgcatttgtccgtgctggaagatctgatttgctactaactccaaaaagcatatcagacctgttgaatttaatttcaaacatgcttttaat--agccaaca----gtaaatgttcatgcagGTTTGAGGGAATGGAGGCACCTAATTCAAAATCTTTTTTCACAGAGATAATTGCTTCAATTTCAGACATTAAGTTTGGAAAGGACGGAAGATACATACTT
| || || ||||| ||| | | || || || || || | | ||| | || || | |||| ||||||||||||| | || | || |||| |||||||||||||| || |||||||||||||| ||||||||||||| || | | | || || ||
-----------------------------------------------------------gttgagggaactgatcattcactggtt-------atgtcccaatgttgatgtatgtacgaggatatgctttttcgttgaagtttgcatggtattgatgtggttgcagGTTTGAGGAGACTGATCCCTCTGGATCAAGGTCTTTTTTCACAGAAATCATTGCTTCAATTTCTGACATTAAGTTTGCAAGAGGTGATCGGTATATTCTC
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S100_124V6.1 (Physcomitrella patens), 3'ss of exon 8
gtgagtgatttattaattattaatctatcttacttattcttttaagtgcatttgtccgtgctggaagatctgatttgctactaactccaaaaagcatatcagacctgttgaatttaatttcaaacatgcttttaatagcca-acagtaaatgttcatgcagGTTTGAGGGAATGGAGGCACCTAATTCAAAATCTTTTTTCACAGAGATAATTGCTTCAATTTCAGACATTAAGTTTGGAAAGGACGGAAGATACATACTT
| | || ||| || ||| | | |||| | | | | || | ||||| || | | | | ||| | || | ||||||||||||| | ||| | || | | || ||||||||||| || |||||||||||||| ||||| ||||||| || | || | ||||| ||
---------------------------------------------------aagatatttctagaa----tggcttggaagt--ttccactacctagagtgatcttgataaattttcttgtagtaaaag----gacaaccatattcggaacttgtgtgcagGTTTGAGGAGAATGAGCCTGCTGGAGCGAGGTCGTTTTTCACAGAAATTATTGCTTCAATTTCTGACATCAAGTTTGCAAGAGGTGGTCGGTACATTCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgaatttaatttcaaacatgcttttaatagccaacagtaaatgttcatgcagGTTTGAGGGAATGGAGGCACCTAATTCAAAATCTTTTTTCACAGAGATAATTGCTTCAATTTCAGACATTAAGTTTGGAAAGGACGGAAGATACATACTT
ttttaat putative branch site (score: 3)
aatttaatttcaaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgatttattaattattaatctatcttacttattcttttaagtgcatttgtccgtgctggaagatctgatttgctactaactccaaaaagcatatcagacctgttgaatttaatttcaaacatgcttttaatagccaacagtaaatgttcatgcagGTTTGAGGGAATGGAGGCACCTAATTCAAAATCTTTTTTCACAGAGATAATTGCTTCAATTTCAGACATTAAGTTTGGAAAGGACGGAAGATACATACTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA