Sequence
atgc intronic sequence ATGC exonic sequence...cgtagcacgccggcacgccgcgcgtcacagcgatacgtgaaaacggtgaaaggttgaaggacggtgatacgtaaatccattgtgttttgtgttgtagcagGATCACAGCTCGAGCGGGCGTCGATGGCGGCGGCTGCTGGCGGAGGGCCCGGGGTCGTACCCGCCGCGGTGCACGGCCAAGTGCGGCGCCTGCGTCCCGT
Basic information
species | Oryza sativa |
transcript | LOC_Os01g60900.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g60900.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G019612_T01 (Zea mays), 3'ss of exon 2
cgtagcacgccggcacgccgcgcgtcacagcgatacgtgaaaacggtgaaaggttgaaggacggtgatacgtaaatccattgtgttttgtgtt---gtagcagGATCACAGCTCGAGCGGGCGTCGATGGCGGCGGCTGCTGGCGGAGGGCCCGGGGTCGTACCCGCCGCGGTGCACGGCCAAGTGCGGCGCCTGCGTCCCGT---
| | | ||| |||| | | || ||| | | | || | ||||| | ||| | || | | | ||||| | | || | ||| | ||||||||||||||||||||| || |||||||| |||||||| ||||||||| |||||||||||| |||| ||| |
tacgttccacgagtgcgcgacgcgacgcgacg-taccctcagcc--cccagcattcagaactcatgatatggttcgttattcttcttgctactcgcgctgcagGGGTGCTACACGGGTGGG---CAATGGCGGCGGCTGCTGGCGGATGGTCCGGGGTCATACCCGCCACGGTGCACGTCCAAGTGCGGCGACTGCAGCCCCTGCT
upper sequence: LOC_Os01g60900.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G702036_T01 (Zea mays), 3'ss of exon 2
--cgtagcacgccggcacgc-cgcgcgtcacagcgatacgtgaaaacggtgaaaggttgaaggacggtgatacgtaaatccattgtgttttgtgttgtagcagGATCACAGCTCGAGCGGGCGTCGATGGCGGCGGCTGCTGGCGGAGGGCCCGGGGTCGTACCCGCCGCGGTGCACGGCCAAGTGCGGCGCCTGCGTCCCGT---
| | | | ||| || ||| || |||||| ||| || | |||| |||| | | || ||| | || | | |||| | | ||| ||| | ||||||||||||||||||||| || |||||||| |||||||| ||||||||| |||||||||||| |||| |||||
cctactgaatactgatacgtacgtacgttccacgcgtacgtgccctcggcagcgagt--actgacgatgattcattcatt-attcttcttgctactcgcacagGGGTGCTACACGACTGGG---CAATGGCGGCGGCTGCTGGCGGACGGTCCGGGGTCATACCCGCCACGGTGCACGTCCAAGTGCGGCGACTGCAGCCCGTGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgaaaggttgaaggacggtgatacgtaaatccattgtgttttgtgttgtagcagGATCACAGCTCGAGCGGGCGTCGATGGCGGCGGCTGCTGGCGGAGGGCCCGGGGTCGTACCCGCCGCGGTGCACGGCCAAGTGCGGCGCCTGCGTCCCGT
taaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgtagcacgccggcacgccgcgcgtcacagcgatacgtgaaaacggtgaaaggttgaaggacggtgatacgtaaatccattgtgttttgtgttgtagcagGATCACAGCTCGAGCGGGCGTCGATGGCGGCGGCTGCTGGCGGAGGGCCCGGGGTCGTACCCGCCGCGGTGCACGGCCAAGTGCGGCGCCTGCGTCCCGT
- - gcacgcc
- - - - - -ggcacgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgtgtt