Sequence
atgc intronic sequence ATGC exonic sequencegtcggtcaagatcccatttccggccgaattatgcgaaatgtggtgtcaattgaggctgattgagacttcgagaggtgtttgtgggcgcagGTCAAGTGCTATGTGCACCAGCTGTTGTCGGGATTGGAGCACTGCCACGACCGGGGGGTGCTGCACCGCGACATCAAGGGGTCGAACCTGCTTTTGGACA
Basic information
species | Oryza sativa |
transcript | LOC_Os07g47180.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g47180.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G333433_T01 (Zea mays), 3'ss of exon 2
gtcggtcaagatcccattt--ccggccgaattatgcgaaatgtggtgtcaat-tgaggc---tgattga-gacttcgagaggtgttt----gtgggcgcagGTCAAGTGCTATGTGCACCAGCTGTTGTCGGGATTGGAGCACTGCCACGACCGGGGGGTGCTGCACCGCGACATCAAGGGGTCGAACCTGCTTTTGGACA
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----gtcaatatcccattcagctggcagcctgacacagcatcgcgcccaattatgaggaatgcgactgataactgattgaggtgtttctctatcgggccagGTCAAGTGCTATGTGCACCAGCTGTTGTCAGGACTTGAGCATTGTCACAACCGGGGAGTGCTACATCGCGACATCAAGGGGTCTAACCTGCTTTTGGACA
upper sequence: LOC_Os07g47180.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM5G873277_T01 (Zea mays), 3'ss of exon 2
gtcggtcaagatcccatttccggccgaattatgcgaaatgtggtgtcaattgaggctgattgagacttcgagaggtgtttgt--gggcgcagGTCAAGTGCTATGTGCACCAGCTGTTGTCGGGATTGGAGCACTGCCACGACCGGGGGGTGCTGCACCGCGACATCAAGGGGTCGAACCTGCTTTTGGACA
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----gtcaggatcctattctgctgacagcctgacacagcatcgcgcccaattatgcgaaatgcgactgattgaggtgtttatatgggggcagGTCAAGTGCTATATGCGTCAGCTCTTGTCAGGGCTGGAGCACTGCCACAACCGGGGAGTGCTTCATCGCGACATCAAGGGGTCAAACCTGCTTTTGGACAMapped 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|29675016|gb|CB671291.1|CB671291EST: ACCTCGCCGGCCTCGCCGCCAGCCCCGAGATCAAGTTCACCCTGCCCCAG GTCAAGTGCTATGTGCACCAGCTGTTGTCGGGATTGGAGCACTGCCACGAC
genomic: ACCTCGCCGGCCTCGCCGCCAGCCCCGAGATCAAGTTCACCCTGCCCCAGgtcggtcaag ... gtgggcgcagGTCAAGTGCTATGTGCACCAGCTGTTGTCGGGATTGGAGCACTGCCACGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgtggtgtcaattgaggctgattgagacttcgagaggtgtttgtgggcgcagGTCAAGTGCTATGTGCACCAGCTGTTGTCGGGATTGGAGCACTGCCACGACCGGGGGGTGCTGCACCGCGACATCAAGGGGTCGAACCTGCTTTTGGACA
ggctgat putative branch site (score: 4)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcggtcaagatcccatttccggccgaattatgcgaaatgtggtgtcaattgaggctgattgagacttcgagaggtgtttgtgggcgcagGTCAAGTGCTATGTGCACCAGCTGTTGTCGGGATTGGAGCACTGCCACGACCGGGGGGTGCTGCACCGCGACATCAAGGGGTCGAACCTGCTTTTGGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC