Sequence
atgc intronic sequence ATGC exonic sequence...cctttgctaaaaagaaaaacatcatgcatcagtttcagctatatataaatgatatatctgtaaaccatgatggtaagaatttaaattgtgttatcaacagGTTGAGTTGTTGAACAACATTCGCCACCCGAATATGGTGCATCTGTTGGGTGCTTGCCCTGAGTATGGCTGTCTGGTGTATGAATACATGCCGAATGGCA
Basic information
species | Oryza sativa |
transcript | LOC_Os02g05820.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g05820.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G467703_T03 (Zea mays), 3'ss of exon 4
---------cctttgctaaaaagaaaaacatcatgcatcagtttcagctatatataaatgatatatctgtaaaccatgatggt------aagaattta-----aattgtgttatcaacagGTTGAGTTGTTGAACAACATTCGCCACCCGAATATGGTGCATCTGTTGGGTGCTTGCCCTGAGTATGGCTGTCTGGTGTATGAATACATGCCGAATGGCA
| ||| | | ||||| ||| | | | || | | | | || | || |||| | | || ||||||||| || |||||||||| || |||||||| ||||||| ||| |||| || ||||| | ||| ||||| |||||||| || ||||||||||| || |
gtacgtactaaactactacgagccctgttctgttgcattgcattcgcatgcacgcatttggttgtttcgcattttttgtttgttttatggagaaaccgtcggcggcggcggcgtcggcagGTTGAGCTGCTGAACAACATCCGTCACCCGAACATGGTGCGCCTGGTGGGGGCGTGCCCGGTGTACGGCTGCCTGGTGTACGAGTACATGCCGAACGGGA
upper sequence: LOC_Os02g05820.1 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv09s0002g01830.t01 (Vitis vinifera), 3'ss of exon 7
--cctttgctaaaaagaaaaacatc--atgcatcagtttcagctatatataaatgatatatctgtaaaccatgatggtaagaatttaaattgtgttatcaacagGTTGAGTTGTTGAACAACATTCGCCACCCGAATATGGTGCATCTGTTGGGTGCTTGCCCTGAGTATGGCTGTCTGGTGTATGAATACATGCCGAATGGCA
|| | | | ||| | | || || ||| | | | || ||| ||||| | | | |||| | ||| | ||||||||| | ||| | ||| | || || |||||||| | || | ||||| |||||||||||||| || || ||||||||||||||| |||||||
gaccaaacttgatctgtggaacttttgagccacttgtctcacatgtgtgcttatt-tattgagttaaacaactaacttc---atttttctgttgtgactttcagGTTGAGGTACTGAGCTGCATGAGACATCCAAATATGGTTCTCCTTGTAGGTGCCTGCCCTGAGTATGGATGCCTTGTGTATGAATACATGGAAAATGGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatgatatatctgtaaaccatgatggtaagaatttaaattgtgttatcaacagGTTGAGTTGTTGAACAACATTCGCCACCCGAATATGGTGCATCTGTTGGGTGCTTGCCCTGAGTATGGCTGTCTGGTGTATGAATACATGCCGAATGGCA
taagaatttaaattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctttgctaaaaagaaaaacatcatgcatcagtttcagctatatataaatgatatatctgtaaaccatgatggtaagaatttaaattgtgttatcaacagGTTGAGTTGTTGAACAACATTCGCCACCCGAATATGGTGCATCTGTTGGGTGCTTGCCCTGAGTATGGCTGTCTGGTGTATGAATACATGCCGAATGGCA
- -ttgctaa
- - - - - -aagaaaa
- - - - - - - - - - -tcatgca
- - - - - - - - - - - - - - - - -ttcagct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgatg