Sequence
atgc intronic sequence ATGC exonic sequence...tatataatgctattttattttacctataaaacaatgtaactttctgatgattgatcattttcaatgctttgatgatttaaaatccttatgcctgcggcagATACACAACACCAGTTCAATGCACGTGAAAGTGATTGGGGATTCACTTCATTCATGCCTCTTGGTGAACTGTATGACCCTGCAAGAGGTTATCTTGTGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 3'ss of exon 4
tatataatgctattttattttacctataaaacaatgtaactttctgatgattgatcattttcaatgctttgatgatttaaaatccttatgcctgcggcagATACACAACACCAGTTCAATGCACGTGAAAGTGATTGGGGATTCACTTCATTCATGCCTCTTGGTGAACTGTATGACCCTGCAAGAGGTTATCTTGTGAA
| ||| || | || | | | | || | || | | || ||| || | || | | | |||| | ||||||||| ||||| || || ||||||||||| ||||| ||||| ||||| || || |||||| | |||| ||||||||||| || || || ||||| ||
tggatattgagaacttctaattttttctatacgtggaaataatgaaagccttttgtattagcagcgattgacttgcacatgttgcttacatgtttggcagATACTCAACATCAATTTAATGCACGTGAGAGTGACTGGGGTTTCACATCTTTTATGCCTTTGAGTGATCTGTATGACCCAAGTAGGGGCTACCTTGTTAA
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S42_181V6.1 (Physcomitrella patens), 3'ss of exon 4
----------------------------------------------------------------------tatataatgctattttatttta---ccta--taaaaca--atgtaactttc--tgatgattgatcatt----ttcaatgctttgatgatttaaaatcctta-tgcctgcg---gcagATACACAACACCAGTTCAATGCACGTGAAAGTGATTGGGGATTCACTTCATTCATGCCTCTTGGTGAACTGTATGACCCTGCAAGAGGTTATCTTGTGAA
| ||| ||| || ||||| | | |||| | | | | ||| ||| || | || | | | || | || | || | || || | | |||||||| || || |||||||||| |||||||||||| ||||||||||| || ||||||||| | ||| || |||| || || |||||| | |||||
gttcgtatataatgtcctcttgctgccataagctttcctctttggacggtgcggttatcgcagggcatggtttatctgcttatcttgttttaggacttggttaaagcttcacgggaggttcgttgaagacaggacagtagaatcctgtgggacaaggactaaagggcactagtggcctcatctgcagATACTCAGCATCAGTTCAATGTACGTGAAAGTGACTGGGGATTCACATCGTTCATGCCTTTACATGACTTGAATGATCCATCACGAGGTTTCGTGGTGAA
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S104_2V6.1 (Physcomitrella patens), 3'ss of exon 4
tatataatgct--attttattttacctataaaacaatgtaactttctgatga--ttgatcattttcaatgctttgatgatttaaaatccttatgcctgcggcagATACACAACACCAGTTCAATGCACGTGAAAGTGATTGGGGATTCACTTCATTCATGCCTCTTGGTGAACTGTATGACCCTGCAAGAGGTTATCTTGTGAA
| | || || ||| ||||| | |||| || | ||| || ||| ||| || || | || | | | | | |||||||| ||||| ||||||||||| || |||||||||||||| ||||| ||||||||||| || ||| | ||||| | | | ||||| ||| |||||
gagaggattcttaattgtatttattgtgacaaacgatttgg-tttgtggtgaggttgggggattccacggtcttatatttcccatggcgacctattt---gcagATACTCAACATCAGTTCAATGCTCGAGAAAGTGATTGGGGTTTCACCTCATTCATGCCACTACATGAGTTATATGATCTATCGAAAGGTTTTCTGGTGAA
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 3'ss of exon 4
--------------------------------------------------------------------------------------tatataatgctattttattttacctataaaacaatgtaactttctgatgattgatcattttcaatgctttgatgatttaaaatc-cttatgcctgcg---gcagATACACAACACCAGTTCAATGCACGTGAAAGTGATTGGGGATTCACTTCATTCATGCCTCTTGGTGAACTGTATGACCCTGCAAGAGGTTATCTTGTGAA
| | | | | || ||| | || | ||| || || | || || || | | || | | |||| || | ||||||||||| || || || |||| ||| |||||||||||||||||||| || ||||||||| | || |||| || || | |||||| | ||||
gttcgttttgtatgcctccatcctctgcaagcgtttctctttgcagatgcaatgggcgttggaaatggtttatttgcttttgtcattctcggacgtggtcgtagttttgttggaagtgcacttaaagacatgttggagcagaatatt--gtgtaacagcggctgaagggcacgtatgacttcttttgcagATACACAGCATCATTTTAATGTACGCGAAAGTGATTGGGGATTCACATCGTTCATGCCTTTACCAGACTTGTACGATCCATCTCGAGGTTTCTTGATGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgattgatcattttcaatgctttgatgatttaaaatccttatgcctgcggcagATACACAACACCAGTTCAATGCACGTGAAAGTGATTGGGGATTCACTTCATTCATGCCTCTTGGTGAACTGTATGACCCTGCAAGAGGTTATCTTGTGAA
tttgatgatttaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatataatgctattttattttacctataaaacaatgtaactttctgatgattgatcattttcaatgctttgatgatttaaaatccttatgcctgcggcagATACACAACACCAGTTCAATGCACGTGAAAGTGATTGGGGATTCACTTCATTCATGCCTCTTGGTGAACTGTATGACCCTGCAAGAGGTTATCTTGTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - -aaaacaa
- - - - - - - - - - - - - - - - - - - - - -ctgatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatcc