Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatgtgcaaatatttggataattcattaaatgattgcacttttactatttataatctaagaaaaaaaatacatttttagGGGATGAAACAATTCAGCAAAGCTGCAAGAGACCTCATTGGTCAGCTTCAAAAGATTGATGGTGATAACTACCCTGAG
Basic information
species | Oryza sativa |
transcript | LOC_Os02g24430.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g24430.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G162461_T01 (Zea mays), 3'ss of exon 5
gtatgtatgtgcaaatatttggataattcattaaatgattgcacttttactatttataatctaagaaaaaaaatacatttttagGGGATGAAACAATTCAGCAAAGCTGCAAGAGACCTCATTGGTCAGCTTCAAAAGATTGATGGTGATAACTACCCTGAG
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gtaggtatctacaaat---ttggtggct-actcaatggt-gcgattttacagtgaataacc-------aaagacacattttcagGGGATGAAGCAATTCAGTAAAGCTGCAAGGGAGCTCATTGGCATGCTTCAGAAGATTGATGGTGACAATTATCCAGAG
upper sequence: LOC_Os02g24430.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA02G05980.1 (Glycine max), 3'ss of exon 3
----gtatgtatgtgcaaat--atttggataattcattaaatgattgcacttt-tactattt-ataatctaagaaaaaa--aatacatttt-------tagGGGATGAAACAATTCAGCAAAGCTGCAAGAGACCTCATTGGTCAGCTTCAAAAGATTGATGGTGATAACTACCCTGAG
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ttcagttcacacttcaaaatgaaccttga-aatctatgaggaaaaagtgatgtgtaaaatatgaaaatatgatgaaaacttgctatgttttaatgtcacagGGCCTCAAGAGCTTCAACAAGCATGCCAGGGAGCTTATCACCCGTCTTCAAAAGATTGACGGTGACAACTACCCTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaaatgattgcacttttactatttataatctaagaaaaaaaatacatttttagGGGATGAAACAATTCAGCAAAGCTGCAAGAGACCTCATTGGTCAGCTTCAAAAGATTGATGGTGATAACTACCCTGAG
cattttt CT-rich tract
ttttactatttataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatgtgcaaatatttggataattcattaaatgattgcacttttactatttataatctaagaaaaaaaatacatttttagGGGATGAAACAATTCAGCAAAGCTGCAAGAGACCTCATTGGTCAGCTTCAAAAGATTGATGGTGATAACTACCCTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT