Sequence
atgc intronic sequence ATGC exonic sequencegtgaattgacagcaatgcatttttgtgtatcgtgagatattgaccttggcttactcaacttcgtgaactgcatttcagAGCCTAGATCTTGCTAGGATTGACCGGATCGTCCGATGCTCGCTCAGATCACAAG
Basic information
species | Oryza sativa |
transcript | LOC_Os08g10600.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g10600.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G155729_T03 (Zea mays), 3'ss of exon 1
-------------------------gtgaattgacagcaatgcatttttgtgtatcgtgagatattgaccttggcttactcaacttcgtgaactgcatttcagAGCCTAGATCTTGCTAGGATTGACCGGATCGTCCGATGCTCGCTCAGATCACAAG---------------------------------------------
| ||| ||| ||| || || | || | | | |||||| ||||| ||| ||| ||| ||||||||||||||||||| |||| ||||| ||||| |||||||||||||| ||||||||||
actgatctcaattgtcattccataagcgaagtgaatgcattg-atgtcactg-aacttccctgattgactgtggctgacttc-ctttatgattcaaatttcagAGCCTAGATCTTCCTAGAATTGATCGGATTGTCCGATGCTCGCTTAGATCACAAGGTGAGCTTTCTCTTAGCGTGCTTCAATATGCAGTATAAGTTCCAG
upper sequence: LOC_Os08g10600.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G155729_T01 (Zea mays), 3'ss of exon 1
-------------------------gtgaattgacagcaatgcatttttgtgtatcgtgagatattgaccttggcttactcaacttcgtgaactgcatttcagAGCCTAGATCTTGCTAGGATTGACCGGATCGTCCGATGCTCGCTCAGATCACAAG
| ||| ||| ||| || || | || | | | |||||| ||||| ||| ||| ||| ||||||||||||||||||| |||| ||||| ||||| |||||||||||||| ||||||||||
actgatctcaattgtcattccataagcgaagtgaatgcattg-atgtcactg-aacttccctgattgactgtggctgacttc-ctttatgattcaaatttcagAGCCTAGATCTTCCTAGAATTGATCGGATTGTCCGATGCTCGCTTAGATCACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgtatcgtgagatattgaccttggcttactcaacttcgtgaactgcatttcagAGCCTAGATCTTGCTAGGATTGACCGGATCGTCCGATGCTCGCTCAGATCACAAG
agatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaattgacagcaatgcatttttgtgtatcgtgagatattgaccttggcttactcaacttcgtgaactgcatttcagAGCCTAGATCTTGCTAGGATTGACCGGATCGTCCGATGCTCGCTCAGATCACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA