Sequence
atgc intronic sequence ATGC exonic sequence...gacttttcctactggaactgcagtactttcaacatgctttttgcaaatgcctgcattaaggatgaataaaatgttaagcaccgactatttagggacgcagGAGCTTCATTCATTTTGCAAGACCACCGAAATATTGGAAGACTCACAGTCTCAAGAGATTGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTC
Basic information
species | Oryza sativa |
transcript | LOC_Os01g43870.3 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g43870.5 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G068690_T04 (Zea mays), 3'ss of exon 1
gacttttcctactggaactgcagtactttcaacatgctttttgcaaatgcctgcattaaggatgaataaaatgttaagcaccgactatttagggacgcagGAGCTTCATTCATTTTGCAAGACCACCGAAATATTGGAAGACTCACAGTCTCAAGAGATTGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTC
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gccttttcctactggaactgcagtactttgaacatgctttttgcaaatacttgcactaaggatgaataaaatgttaagcaacgactgtttagggacacagGAGCCTCATACATTTTGCAAGACCACTGAAACACTGGAACATTCACACCCTCAAGAGGTTACACTTGATAAAACGGTGGCGGGGTCAACGCTAATAAGTC
upper sequence: LOC_Os01g43870.5 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G068690_T03 (Zea mays), 3'ss of exon 1
--------gacttttcctactggaactgcagtactttcaacatgctttttgcaaatgcctgcattaaggatgaataaaatgttaagcaccgactatttagggacgcagGAGCTTCATTCATTTTGCAAGACCACCGAAATATTGGAAGACTCACAGTCTCAAGAGATTGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTC
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aacagttggccttttcctactggaactgcagtactttgaacatgctttttgcaaatacttgcactaaggatgaataaaatgttaagcaacgactgtttagGGACACAGGAGCCTCATACATTTTGCAAGACCACTGAAACACTGGAACATTCACACCCTCAAGAGGTTACACTTGATAAAACGGTGGCGGGGTCAACGCT--------
upper sequence: LOC_Os01g43870.5 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G068690_T02 (Zea mays), 3'ss of exon 1
------gacttttcctactggaactgcagtactttcaacatgctttttgcaaatgcctgcattaaggatgaataaaatgttaagcaccgactatttagggacgcagGAGCTTCATTCATTTTGCAAGACCACCGAAATATTGGAAGACTCACAGTCTCAAGAGATTGCACTC--GATAGAACAGCGGTGGGGTCAACACTTCTAAGTC---
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gtggttaaagtatgttctttcgactgcattaggttgtagatagttccttgtttcaccttttct-----ccactaatgtctttagtga----tatcaaatgtttcaacagTTGGCCTTTTCCTACTGGA--ACTGCAGTACTTTGAACATGCTTTTTGCAAATACTTGCACTAAGGATGAATAAAATGTTAAGCAACGACTGTTTAGGGACAMapped 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|88301105|gb|CI594631.1|CI594631EST: GAGATCGTGCTCCGCGAGGGAACGGCGGCGAGGAGCTGGGTGCATCTCGG GAGCTTCATTCATTTTGCAAGACCACCGAAATATTGGAAGACTCACAGTCT
genomic: GAGATCGTGCTCCGCGAGGGAACGGCGGCGAGGAGCTGGGTGCATCTCGGgtacgtgcct ... agggacgcagGAGCTTCATTCATTTTGCAAGACCACCGAAATATTGGAAGACTCACAGTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgcctgcattaaggatgaataaaatgttaagcaccgactatttagggacgcagGAGCTTCATTCATTTTGCAAGACCACCGAAATATTGGAAGACTCACAGTCTCAAGAGATTGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTC
atgaataaaatgttaa 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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gacttttcctactggaactgcagtactttcaacatgctttttgcaaatgcctgcattaaggatgaataaaatgttaagcaccgactatttagggacgcagGAGCTTCATTCATTTTGCAAGACCACCGAAATATTGGAAGACTCACAGTCTCAAGAGATTGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA