Sequence
atgc intronic sequence ATGC exonic sequencegtaaggggctcctgcttttcttttccgttggatgatcttcatcttattatataggcttgattacgttttggaagaactcattgactcgtttcatcatctgattccattaaagttttgccttcaacagCAGAATCCATTCCGCTGGTGATGGACGGGTTTAAAGCAAGAAGCGGTGATGGAGCTCGGTCGTGCGTCTCGTGTGTTGTTTTGTGTGCGTCGTCGTCGCT
Basic information
species | Oryza sativa |
transcript | LOC_Os02g04030.2 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g04030.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G171349_T02 (Zea mays), 3'ss of exon 8
gtaaggggctcctgcttttcttttccgttggatgatcttcatcttattatataggcttgattacgttttggaagaactcattgactcgtttcatcatctgattccattaaagttttgccttcaacagCAGAATCCATTCCGCTGGTGATGGACGGGTTTAAAGCAAGAAGCGGTGATGGAGCTCGGTCGTGCGTCTCGTGTGTTGTTTTGTGTGCGTCGTCGTCGCT-
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gtaagtcagtccag---tccagtccagtccagtgtgtttctgatcttggcgttggct--gccactccgcgg---------ttgatttgt---gtgagctgatttcattaaagttttgcctccaacagCAGAACCCGTTCCGATGGTGACGCGCCAGGGGGGGAAGGGCGATGGCG-CGGTGCATGATCCAGTGATCAGGCGGCCCTTGGACCCCCAATACGTATGCAT
upper sequence: LOC_Os02g04030.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G171349_T01 (Zea mays), 3'ss of exon 8
gtaaggggctcctgcttttcttttccgttggatgatcttcatcttattatataggcttgattacgttttggaagaactcattgactcgtttcatcatctgattccattaaagttttgccttcaacagCAGAATCCATTCCGCTGGTGATGGAC----GGGTTTAAAGCAA-GAAGCGGTGATGGAGCT--CGGTCGTGCGTCTCGTGTGTTGT---TTTGTGTGCGTCGTCGTCGCT
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gtaagtcagtccag---tccagtccagtccagtgtgtttctgatcttggcgttggct--gccactccgcgg---------ttgatttgt---gtgagctgatttcattaaagttttgcctccaacagcagAACCCGTTCCGATGGTGACGCGCCAGGGGGGGAAGGGCGATGGCGCGGTGCATGATCCAGTGATCAGGCGGCCCTTGGACCCCCAATACGTATGCATCCT------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaactcattgactcgtttcatcatctgattccattaaagttttgccttcaacagCAGAATCCATTCCGCTGGTGATGGACGGGTTTAAAGCAAGAAGCGGTGATGGAGCTCGGTCGTGCGTCTCGTGTGTTGTTTTGTGTGCGTCGTCGTCGCT
ttttgccttc CT-rich tract
attaaagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggggctcctgcttttcttttccgttggatgatcttcatcttattatataggcttgattacgttttggaagaactcattgactcgtttcatcatctgattccattaaagttttgccttcaacagCAGAATCCATTCCGCTGGTGATGGACGGGTTTAAAGCAAGAAGCGGTGATGGAGCTCGGTCGTGCGTCTCGTGTGTTGTTTTGTGTGCGTCGTCGTCGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT