Sequence
atgc intronic sequence ATGC exonic sequence...aactatgagtctcactattttgtttcgatttttaaacttgtgtgttataacaactgaagtggccactgatcttgaattatttatcctgtcttctcttcagATCTTCGATGGCCACAATGGATCTGCGGCTGCCATATACACCAGGGAGAACCTCTTGAACAATGTGTTGGCTGCTATTCCCCCAAATCTTACAAGTGAGG
Basic information
species | Oryza sativa |
transcript | LOC_Os03g27780.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g27780.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G077960_T01 (Zea mays), 3'ss of exon 1
aactatgagtctcactattttgtttcgatttttaaacttgtgtgttataacaactgaagtggccactgatcttga----attatttatcctgtcttctct--tcagATCTTCGATGGCCACAATGGATCTGCGGCTGCCATATACACCAGGGAGAACCTCTTGAACAATGTGTTGGCTGCTATTCCCCCAAATCTTACAAGTGAGG
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---cttataccacctcaatccactccaatcc--aaaattacacaa-acaagccctaaagtgattgctaatctcactcacactattcattctggtttctcgcatcagATTTTTGACGGACACAATGGCTCTGCAGCTGCCATATACACCCGGGAGAATCTAATAAGCAGTGTGTTGGCTGCTATTCCTCCAAATCTCACAAGTGAGG
upper sequence: LOC_Os03g27780.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G150213_T04 (Zea mays), 3'ss of exon 1
aactatgagtctc-actattttgtttcgatttttaaacttgtgtgttataacaactgaagtggccactgatcttg----aattatttatcctgtcttctcttcagATCTTCGATGGCCACAATGGATCTGCGGCTGCCATATACACCAGGGAGAACCTCTTGAACAATGTGTTGGCTGCTATTCCCCCAAATCTTACAAGTGAGG
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---tatgaatgtagagtattatagtttctatattaaacat-tcccttatacaaactaaagtgatagctaatctcactcaaactattcattctggtttctcg-cagATTTTTGATGGACACAATGGCTCTTTAGCTGCCATATACACACGGGAGAATCTAATAAACAATGTGCTGGCTGCTATTCCTCCAAATCTCACAAGTGAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataacaactgaagtggccactgatcttgaattatttatcctgtcttctcttcagATCTTCGATGGCCACAATGGATCTGCGGCTGCCATATACACCAGGGAGAACCTCTTGAACAATGTGTTGGCTGCTATTCCCCCAAATCTTACAAGTGAGG
ttatttatcctgtctt CT-rich tract
atcttgaattatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactatgagtctcactattttgtttcgatttttaaacttgtgtgttataacaactgaagtggccactgatcttgaattatttatcctgtcttctcttcagATCTTCGATGGCCACAATGGATCTGCGGCTGCCATATACACCAGGGAGAACCTCTTGAACAATGTGTTGGCTGCTATTCCCCCAAATCTTACAAGTGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT