Sequence
atgc intronic sequence ATGC exonic sequence...ttctggatccttatttctgtgtttatcactaattgttctattctctttttattccttttcatctgtattaaacctgtgtgataccctgtctttgtatcagAAAACAGCCTGGCTGGCAATATTCTACATGTGTATACCATCTGGAATTGCAGTCGGCTATGTTTATGGTGGATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os04g44430.1 (Oryza sativa), 3'ss of exon 4
ttctggatccttatttctgtgtttatcactaattgt-tctattctctt-tttattccttttcatctgtattaaacctgtgtgataccctgtctttgtatcagAAAACAGCCTGGCTGGCAATATTCTACATGTGTATACCATCTGGAATTGCAGTCGGCTATGTTTATGGTGGATTG
| || || | || | | | | ||||||| | || || | | || || | || ||| | || ||| | || | ||||||||||| ||||| || || ||||||||||||||||| ||||||| || || ||||||||||||||||| |||
ctatgcatattacttggaggttctgtttttaattgtacttgttttcatgtctagtctctagtgtcaaccaggaacttacttgctactcctatgtt--accagAAAACAGCATGGCTTGCTATGTTCTACATGTGTATACCCACTGGAATAGCGGTTGGCTATGTTTATGGTGGTTTG
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G164743_T01 (Zea mays), 3'ss of exon 5
-ttctggatccttatttctgtgtttatc-actaattgttctattctctttttattccttttcatctgtattaaacctgtgtgataccctgtctttgtatcagAAAACAGCCTGGCTGGCAATATTCTACATGTGTATACCATCTGGAATTGCAGTCGGCTATGTTTATGGTGGATTG
|| | | | ||| ||| | ||||| ||| | | | || | | | ||| | | | || || | || | || || ||||||||||| ||||| | || |||||||||||||||||| |||| |||||| | |||||||||||||| ||| ||
tttgcgacgacactgtgctgcatttttttgctaatggttac-tgttatgcataattcgtcatgtcttttatgagccaatgatttctact-tattgttaccagAAAACAGCGTGGCTTGGTATGTTCTACATGTGTATACCAACTGGGATTGCATTAGGCTATGTTTATGGCGGACTG
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G062024_T01 (Zea mays), 3'ss of exon 5
---ttctggatccttatttctgtgtttatcactaattgttctattctctttttattccttttcatctgtattaaacctgtgtgataccctgtctttgt-atcagAAAACAGCCTGGCTGGCAATATTCTACATGTGTATACCATCTGGAATTGCAGTCGGCTATGTTTATGGTGGATTG
|| ||| ||| || ||| | ||| | | | | ||||| | |||| | | ||| | ||| | | ||| | ||||||||||| ||||| | || |||||||||||||||||| |||| || ||| | |||||||||||||| ||| ||
ttctttcatgaagctatgctacaatttttcgctagtggtt--actgt-tatttatagtatgtcatgtctcttacggcca-atgacttctacttactgttaccagAAAACAGCATGGCTTGGTATGTTCTACATGTGTATACCAACTGGGATAGCATTAGGCTATGTTTATGGCGGACTG
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G32670.1 (Glycine max), 3'ss of exon 5
---------------------------ttctggatccttatttctgtgtttatcactaattgttctattctctttttattccttttcatctgtattaaacctgtgtgataccctgtc-tttgtatcagAAAACAGCCTGGCTGGCAATATTCTACATGTGTATACCATCTGGAATTGCAGTCGGCTATGTTTATGGTGGATTG
|| | |||||| || | | | | | || | ||| | || | |||| | | ||||| ||| || | | | |||||||||||||||| ||||| |||||||| |||||||| |||||||| || |||| | ||||| || || ||||| |||
gtttgttcctttcccttggatgatatcctcggcatccttcttggtagttggaatatcatctg--ccattatgattgattgattttttaccctggcggaacctctgtctcacgcgggagtatgtatcagAAAACAGCATGGCTTGCAATATTTTACATGTGCATACCATCGGGCTATGCACTTGGCTACGTCTACGGTGGTTTG
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G06660.1 (Glycine max), 3'ss of exon 5
-------------------------ttctggatccttatttctgtgtttatcactaattgttctattctctttttattccttttcatctgtattaaacctgtgtgataccctgtc-tttgtatcagAAAACAGCCTGGCTGGCAATATTCTACATGTGTATACCATCTGGAATTGCAGTCGGCTATGTTTATGGTGGATTG
| || | | | || || | | | ||| | || | | |||| | ||||| ||| || ||| | |||||||||||||||| ||||| |||||||| |||||| ||||||||| ||| |||| | |||||||| || ||| | |||
gtttgtttctttccgaaggatgatatcctcagcattcttcttggtagttggaatgtcatctgtcattatgattgattgcttttttcccctggcggaacctctgtctcacactggagtatgtatcagAAAACAGCATGGCTTGCAATATTTTACATGCATATACCATCGGGATATGCACTTGGCTATGTCTACGGTTGTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttattccttttcatctgtattaaacctgtgtgataccctgtctttgtatcagAAAACAGCCTGGCTGGCAATATTCTACATGTGTATACCATCTGGAATTGCAGTCGGCTATGTTTATGGTGGATTG
ccctgtcttt CT-rich tract
tgtattaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctggatccttatttctgtgtttatcactaattgttctattctctttttattccttttcatctgtattaaacctgtgtgataccctgtctttgtatcagAAAACAGCCTGGCTGGCAATATTCTACATGTGTATACCATCTGGAATTGCAGTCGGCTATGTTTATGGTGGATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- -tggatcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctgtc