Sequence
atgc intronic sequence ATGC exonic sequence...gattgttggcaatgcactatgtagaaaatttgactactatctattatagcgcatatgcttgttgagagacttgtgagcactgaaacacttccatttgcagGGAGTTCCTTATCCAGCTTTGCCTAAGAAGGAAAAACCAAGGCGTGTGGAACTGTATTTCTCAAGTTGGCGTATTAGAGCAG
Basic information
species | Oryza sativa |
transcript | LOC_Os07g08760.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g08760.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G121223_T02 (Zea mays), 3'ss of exon 5
gattgttggcaatgcactatgtagaaaat-ttgactactatctattatagcgcatatgcttgttgagag---acttgtgagcactgaaacacttccattt-gcagGGAGTTCCTTATCCAGCTTTGCCTAAGAAGGAAAAACCAAGGCGTGTGGAACTGTATTTCTCAAGTTGGCGTATTAGAGCAG
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-----caaggatttcaatatattaaaatcgctgcctgtagaaaatgtttgctaacatcctatgtaagtgcatatatgtgagcgctcagcagcctccgttccgcagGGTGTTCCATATCCATCATTGCCCAAGAAAGAAAAACCGAGGCGTGTGGAGCTGTACTTCTCAAGTTGGCGTATTAGAGCTG
upper sequence: LOC_Os07g08760.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G124965_T01 (Zea mays), 3'ss of exon 4
--gattgttggcaatgcactatgtagaaaatttgactactatctattatagcgcatatgcttgttgagagacttgtgagcactgaaacacttccatttg-cagGGAGTTCCTTATCCAGCTTTGCCTAAGAAGGAAAAACCAAGGCGTGTGGAACTGTATTTCTCAAGTTGGCGTATTAGAGCAG
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cacaagggtttcaatatattaaaatcactgtgtagaaaatgtttgctaacat-cctatgtaagt--gcatatatgtgagcgctcagcaacctccatttggcagGGTGTTCCATATCCATCATTGCCCAAGAAAGAAAAACCAAGGCGTGTGGAGTTGTACTTCTCAAGTTGGCGTATTAGAGCTG
upper sequence: LOC_Os07g08760.2 (Oryza sativa), 3'ss of exon 3
lower sequence: AT4G14500.1 (Arabidopsis thaliana), 3'ss of exon 4
gattgttggcaatgcactatgtagaaaatttgactactatctattatagcgcatatgcttgttgagagacttgtgagcac-tgaaacac---ttccat-ttgcagGGAGTTCCTTATCCAGCTTTGCCTAAGAAGGAAAAACCAAGGCGTGTGGAACTGTATTTCTCAAGTTGGCGTATTAGAGCAG
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-attcacaa-aatgcataaggttgtattctttgttag-gtttatc-cagctctaaacaaagctcaaag-ctcagaaccatacttaacacctgttcaatattgtagGGAGTTCCTTATCCAGCTCTACCAAAGCGTGATAAGCCAAGGCGTGTTGAGCTTTATTTCTCAAGTTGGGTTATCAGAGCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagcgcatatgcttgttgagagacttgtgagcactgaaacacttccatttgcagGGAGTTCCTTATCCAGCTTTGCCTAAGAAGGAAAAACCAAGGCGTGTGGAACTGTATTTCTCAAGTTGGCGTATTAGAGCAG
cttccattt CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gattgttggcaatgcactatgtagaaaatttgactactatctattatagcgcatatgcttgttgagagacttgtgagcactgaaacacttccatttgcagGGAGTTCCTTATCCAGCTTTGCCTAAGAAGGAAAAACCAAGGCGTGTGGAACTGTATTTCTCAAGTTGGCGTATTAGAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG