Sequence
atgc intronic sequence ATGC exonic sequence...tctcttagtttggaattacattaataagatttttgagtttcaacctactaaatttgaagtactggtactgatagtgctgttgtttgaactgagcaaaaagCACTTGCAGACTTGAGAAGAATCAATTTAGATGGTTTGAGATGGTGTGTATTTGACGCAAAGGGCCAG
Basic information
species | Oryza sativa |
transcript | LOC_Os05g15360.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g15360.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G044584_T02 (Zea mays), 3'ss of exon 1
tctcttagtttggaattac--attaataagatttttgagtttcaacctactaaatttgaagtactg--gtactgatagtgctgttgtttgaactgagcaaaaagCACTTGCAGACTTGAGAAGAATCAATTTAGATGGTTTGAGATGGTGTGTATTTGACGCAAAGGGCCAG
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cctgtgggtgctcgcctgctcgttcttctgaatgtgcagtctgatccatgttgatgtcaagtactactgtattagcacttatggtttttgatgtgcgcagAAAGCACTTGCAGGTCTGAGAAGAATCAGTTTAGATGGGTTGCGATGGCGCGTATTTGATGCTAAGGGTCAG
upper sequence: LOC_Os05g15360.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G163473_T01 (Zea mays), 3'ss of exon 1
-----tctcttagtttggaattacattaataagatttttgagtttcaacctactaaatttgaagtactggtactgatagtg--ctgttgtttgaactgagcaaaaagCACTTGCAGACTTGAGAAGAATCAATTTAGATGGTTTGAGATGGTGTGTATTTGACGCAAAGGGCCAG
||||| | |||||| ||| | | || | || | | | | | ||||||| | ||||| || | | ||||| || ||| ||||||||||||| |||||||||||||||||||||| | ||||| | |||||||| || ||||| |||
cagaatctctagttatggaatgttatttctga-atccgcagttcacatcatgttcagtc--aagtactagcactgacggttgcttcctttttgatatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactaaatttgaagtactggtactgatagtgctgttgtttgaactgagcaaaaagCACTTGCAGACTTGAGAAGAATCAATTTAGATGGTTTGAGATGGTGTGTATTTGACGCAAAGGGCCAG
aatttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctcttagtttggaattacattaataagatttttgagtttcaacctactaaatttgaagtactggtactgatagtgctgttgtttgaactgagcaaaaagCACTTGCAGACTTGAGAAGAATCAATTTAGATGGTTTGAGATGGTGTGTATTTGACGCAAAGGGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG