Sequence
atgc intronic sequence ATGC exonic sequencegtgagtaacaaattattctttctcttttagtttacgactactcatattttgtcgaagttttttcttttcatgttcgtcgtcacttatttttgtcttcctctgttgctgcagCTAAAGAAAGAATCTATCCTGTTGCTGATGCTACTACCTTTTTTACTGATATGCACTATATCCTTCGTGTGTTGGCTGCTGGGGATATTCGAACTGTATG
Basic information
species | Oryza sativa |
transcript | LOC_Os07g49270.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g49270.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G134396_T02 (Zea mays), 3'ss of exon 5
gtgagtaacaaatta-ttctttctcttttagtttacgactactcatatttt---gtcgaagttttttcttttcatgttcgtcgtcacttatttttgtcttcctctgttgctgcagCTAAAGAAAGAATCTATCCTGTTGCTGATGCTACTACCTTTTTTACTGATATGCACTATATCCTTCGTGTGTTGGCTGCTGGGGATATTCGAACTGTATG
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gtgagtaataaaggaattccatatcttttagtttctatacatctctaccttcatgtgatgatgacttggtttagggtatactgattattatctttgtc----tatgtcattacagCTAAAGAAAGACTCTATCCAGTTGCCGATGCAACTACCTTCTTTACTGATATGCACTACGTCCTTCGTGTGTTGGCTGCTGGGGATATCCGAACCGTGTG
upper sequence: LOC_Os07g49270.1 (Oryza sativa), 3'ss of exon 6
lower sequence: EFJ17267 (Selaginella moellendorffii), 3'ss of exon 4
gtgagtaacaaattattctttctcttttagtttacgactactcatattttgtcgaagttttttcttttcatgttcgtcgtcacttatttttgtcttcctctgttgctgcagCTAAAGAAAGAATCTATCCTGTTGCTGATGCTACTACCTTTTTTACTGATATGCACTATATCCTTCGTGTGTTGGCTGCTGGGGATATTCGAACTGTATG
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--------------------------------------------------gtacttactttcttaccaacttttccttgcaactaaggttttaataactgtgtaat--cagCCAAAGAGGAACTCTTCCCGGTTGCTGATGCTACAACCTTTTTTACTGACATGCATAGGATACTTCGAATCGTCTCACTCGGCAATGTTCGAACTCTCTG
upper sequence: LOC_Os07g49270.1 (Oryza sativa), 3'ss of exon 6
lower sequence: EFJ30909 (Selaginella moellendorffii), 3'ss of exon 4
gtgagtaacaaattattctttctcttttagtttacgactactcatattttgtcgaagttttttcttttcatgttcgtcgtcacttatttttgtcttcctctgttgctgcagCTAAAGAAAGAATCTATCCTGTTGCTGATGCTACTACCTTTTTTACTGATATGCACTATATCCTTCGTGTGTTGGCTGCTGGGGATATTCGAACTGTATG
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--------------------------------------------------gtacttattttcttaccaacttttccttgcaactaaggttttaataactgtgtaat--cagCCAAAGAGGAACTCTTCCCGGTTGCTGATGCTACAACCTTTTTTACTGACATGCATAGGATACTTCGAATCGTCTCACTCGGCAATGTTCGAACTCTCTGMapped 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|33678657|gb|CF306896.1|CF306896EST: TCATTTTGAAATGGTTGATGGTGTTATTCATGTATACCCCAATAAAGACG CTAAAGAAAGAATCTATCCTGTTGCTGATGCTACTACC
genomic: TCATTTTGAAATGGTTGATGGTGTTATTCATGTATACCCCAATAAAGACGgtgagtaaca ... gttgctgcagCTAAAGAAAGAATCTATCCTGTTGCTGATGCTACTACC
EST:
gi|58609363|gb|CK037396.1|CK037396EST: TCATTTTGAAATGGTTGATGGTGTTATTCATGTATACCCCAATAAAGACG CTAAAGAAAGAATCTATCCTGTTGCTGATGCTACTACCTTTTTTACTGATA
genomic: TCATTTTGAAATGGTTGATGGTGTTATTCATGTATACCCCAATAAAGACGgtgagtaaca ... gttgctgcagCTAAAGAAAGAATCTATCCTGTTGCTGATGCTACTACCTTTTTTACTGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttttcttttcatgttcgtcgtcacttatttttgtcttcctctgttgctgcagCTAAAGAAAGAATCTATCCTGTTGCTGATGCTACTACCTTTTTTACTGATATGCACTATATCCTTCGTGTGTTGGCTGCTGGGGATATTCGAACTGTATG
cttatttttgtcttcc CT-rich tract
acttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtaacaaattattctttctcttttagtttacgactactcatattttgtcgaagttttttcttttcatgttcgtcgtcacttatttttgtcttcctctgttgctgcagCTAAAGAAAGAATCTATCCTGTTGCTGATGCTACTACCTTTTTTACTGATATGCACTATATCCTTCGTGTGTTGGCTGCTGGGGATATTCGAACTGTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT