Sequence
atgc intronic sequence ATGC exonic sequence...tagtgtaaaattaaatattttcgattgtaggtataaaattttatagtgtaaaattcagatatctcgaaggatggtaaaatttgtggatggatggatgcagGCACGCAGGAGGAGGCGGCGGAGGCGTACGACGTGGCGGCGATCAAGTTCCGGGGGCTCAACGCCGTCACCAACTTCGACATCACCCGCTACGACGTCGA
Basic information
species | Oryza sativa |
transcript | LOC_Os07g03250.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G008234_T01 (Zea mays), 3'ss of exon 5
tagtgtaaaattaaatattttcgattgtaggtataaaattttatagtgtaaaattcagatat--ctcgaaggatggtaaaatttgtggatggatggatgcagGCACGCAGGAGGAGGCGGCGGAGGCGTACGACGTGGCGGCGATCAAGTTCCGGGGGCTCAACGCCGTCACCAACTTCGACATCACCCGCTACGACGTCGA
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tcgcatcgcacgcgctgggggccatctgctgcccgcccccctctgcctcgatctttctttccggttctgacgatggccatcaccgtcggc--acgcgcgcagGCACGCAGGAGGAGGCCGCGGAGGCGTACGACGTCGCGGCCATCAAGTTCAGGGGCCTCAACGCCGTCACCAACTTCGACATCACGCGCTACGACGTCGA
upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 6
lower sequence: PP1S66_282V6.1 (Physcomitrella patens), 3'ss of exon 6
------------------------------------tagtgtaaaattaaatatt-ttcgattgtaggtataaaatttta-tagtgtaaaattcagatatctcgaaggatggtaaaatt--tgtggatggatg-gatgcagGCACGCAGGAGGAGGCGGCGGAGGCGTACGACGTGGCGGCGATCAAGTTCCGGGGGCTCAACGCCGTCACCAACTTCGACATCACCCGCTACGACGTCGA
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gtgagtggcagtttgacttgggggtttgcagaggaggagggggtttgtatgtgttgttgggatgtggagggagatgtgcagttgcagcagacgtggggatctgatccaacggtcggcgtggcgtgggtgtgtgtgagtcagGCACGCAGGAGGAAGCAGCAGAGGCATACGACCTGGCGGCGATAAAATTCCGTGGAATCAACGCCGTGACAAACTTCGACATCTCTCGGTACGACGCCGG
upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 6
lower sequence: EFJ21317 (Selaginella moellendorffii), 3'ss of exon 7
tagtgtaaaattaaatattttcgattgtaggtataaaattttatagtgtaaaattcagatatctcgaaggatggtaaaatttgtggatggatggatgcagGCACGCAGGAGGAGGCGGCGGAGGCGTACGACGTGGCGGCGATCAAGTTCCGGGGGCTCAACGCCGTCACCAACTTCGACATCACCCGCTACGACGTCGA
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--------------------------gtaagttctcagttgtttaaagcaa---tgcaatgcctcgct---cggtctgatct-tgtttaaaccaac-cagGCACGCAAGAGGAAGCCGCGGAAGCATACGACATCGCCGCGATCAAGTTCCGGGGCATCAACGCGGTCACCAACTTCGACATCAGCCGCTACGACCTCAA
upper sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 6
lower sequence: EFJ26861 (Selaginella moellendorffii), 3'ss of exon 7
tagtgtaaaattaaatattttcgattgtaggtataaaattttatagtgtaaaattcagatatctcgaaggatggtaaaatttgtggatggatggatgcagGCACGCAGGAGGAGGCGGCGGAGGCGTACGACGTGGCGGCGATCAAGTTCCGGGGGCTCAACGCCGTCACCAACTTCGACATCACCCGCTACGACGTCGA
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--------------------------gtaagttctcagttgtttagagcaa---tgcaatgcctcgct---cggtctgatct-tgtttaaaccaac-cagGCACGCAAGAGGAAGCCGCGGAAGCATACGACATCGCCGCGATCAAGTTCCGGGGCATCAACGCGGTCACCAACTTCGACATCAGCCGCTACGACCTTAAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|58686395|gb|CK075082.1|CK075082EST: ACGCATCGGCCGAGTCTCCGGCAACAAGGACCTCTACCTCGGCACTTTCA GCACGCAGTGAGTGAGGCGGCGGATGCGTACGACGTGGCGGCGATCAAGTT
genomic: ACGCATCGGCCGAGTCTCCGGCAACAAGGACCTCTACCTCGGCACTTTCAgtacgaatca ... atggatgcagGCACGCAG-GAG-GAGGCGGCGGAGGCGTACGACGTGGCGGCGATCAAGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtaaaattcagatatctcgaaggatggtaaaatttgtggatggatggatgcagGCACGCAGGAGGAGGCGGCGGAGGCGTACGACGTGGCGGCGATCAAGTTCCGGGGGCTCAACGCCGTCACCAACTTCGACATCACCCGCTACGACGTCGA
taaaatttgt 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 |
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tagtgtaaaattaaatattttcgattgtaggtataaaattttatagtgtaaaattcagatatctcgaaggatggtaaaatttgtggatggatggatgcagGCACGCAGGAGGAGGCGGCGGAGGCGTACGACGTGGCGGCGATCAAGTTCCGGGGGCTCAACGCCGTCACCAACTTCGACATCACCCGCTACGACGTCGA
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