Sequence
atgc intronic sequence ATGC exonic sequencegtttgaaatattttatgttctacttgatgacttgatgcatgaagtttcatgtttcaacagtatgcaatatttcatttatcaagttcttttatttttttgaaaaaaacaatgagagtatgtgtttcatgctgctttcagGCTGCAGTTTATGGTATTGGCATTTGCGCTGAGTTTGGTGGCTCTGCATTTAGGCCTCACACTGGTG
Basic information
species | Oryza sativa |
transcript | LOC_Os03g49420.2 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g49420.1 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 14
gtttgaaatattttatgttctacttgatgacttgatgcatgaagtttcatgtttcaacagtatgcaatatttcatttatcaagttcttttatttttttgaaaaaaacaatgagagtatgtgtttcatgctgctttcagGCTGCAGTTTATGGTATTGGCATTTGCGCTGAGTTTGGTGGCTCTGCATTTAGGCCTCACACTGGTG
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gtttg---tatttcttatt-tgttctacatcctagtgca-gcagaattatgtgt-aaca----gcaacccttcatctcttaagagtgcattttcatttccaa----------------------cttgctgctttcagGCTGCAGTGTATGGAATTGGCATTTGTGCCGAATGTGGTGGTTCTGCATTTAGGCCTCACACTGGGG
upper sequence: LOC_Os03g49420.1 (Oryza sativa), 3'ss of exon 14
lower sequence: GLYMA16G04400.1 (Glycine max), 3'ss of exon 15
gtttgaaatattttatgttctacttgatgacttgatgcatgaagtttcatgtttcaacagtatgcaatatttcatttatcaagttcttttatttttttgaaaaaaacaatgagagtatgtgtttcatgctgctttcagGCTGCAGTTTATGGTATTGGCATTTGCGCTGAGTTTGGTGGCTCTGCATTTAGGCCTCACACTGGTG
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---------------------------------gttcattgcccctgcttgttttatta-tatatta-atgttgcttattcagttttgggacgtaattgagac--actatctcacaaaacgattaaatttctttgcagGCTGCTGTTTATGGTGTTGGTGTTTGTGCTGAGTTTGGTGGATCTGTTTTCAAACCCCTTGTTGGAG
upper sequence: LOC_Os03g49420.1 (Oryza sativa), 3'ss of exon 14
lower sequence: GLYMA19G29010.1 (Glycine max), 3'ss of exon 15
gtttgaaatattttatgttctacttgatgacttgatgcatgaagtttcatgtttcaacagtatgcaatatttcatttatcaagttcttttatttttttgaaaaaaacaatgagagtatgtgtttcatgctgctttcagGCTGCAGTTTATGGTATTGGCATTTGCGCTGAGTTTGGTGGCTCTGCATTTAGGCCTCACACTGGTG
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---------------------------------gttcattgccccttcttggtttattatattttaatgttgc--ttattcagttttgggacgtaattgaggc--actatctaacaaaacaattaaatttctttgcagGCTGCTGTTTATGGTGTTGGTGTTTGTGCTGAGTTTGGTGGATCTGTTTTCAGCCCCCTTGTTGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttttatttttttgaaaaaaacaatgagagtatgtgtttcatgctgctttcagGCTGCAGTTTATGGTATTGGCATTTGCGCTGAGTTTGGTGGCTCTGCATTTAGGCCTCACACTGGTG
ctgctttc CT-rich tract
ttatttttttgaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgaaatattttatgttctacttgatgacttgatgcatgaagtttcatgtttcaacagtatgcaatatttcatttatcaagttcttttatttttttgaaaaaaacaatgagagtatgtgtttcatgctgctttcagGCTGCAGTTTATGGTATTGGCATTTGCGCTGAGTTTGGTGGCTCTGCATTTAGGCCTCACACTGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG