Sequence
atgc intronic sequence ATGC exonic sequencegtataaatattgtctcacacttgtagttcactcatgttaacatgttctggatgtataacatagttactgcaaacttagttgttgggcttaggacctgaggaagtaagggtttactttgttgttatcttaccctgactctgagattatcctaacacttggtacactgatttccttagGTTGGTTCCTTCGTACCAGCTTCATCAGCAACATTGCATGCTGTTGATGGAATTTATACTCGAATGGGCGCGTCCGATAGTATTCAGCATGGAACAAGTA
Basic information
species | Oryza sativa |
transcript | LOC_Os04g58630.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os04g58630.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GLYMA20G29680.1 (Glycine max), 3'ss of exon 10
gtataaatattgtctcacacttgtagttcactcatgttaacatgttctggatgtataacatagttactgcaaacttagttgttgggcttaggacctgaggaagtaagggtttactttgttgttatcttaccctgactctgagattatcctaacacttggtacactgatttccttagGTTGGTTCCTTCGTACCAGCTTCATCAGCAACATTGCATGCTGTTGATGGAATTTATACTCGAATGGGCGCGTCCGATAGTATTCAGCATGGAACAAGTA-------------------
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-----------------------------------------------------------------------------------------aaaaattta--acctactgcttttctttgacaaccttgtcccttccacctgttgctttattgaaatat----ctctgatctctttaggttggttcctttgtaccagCATCATCAGCAAAATTGCATGTCCTGGATAGGATCTACACCCGGATGGGTGCATCTGACAGTATTCAGCTAGGGAGAAGCACCTTCCTAGAAGAACTAAG
upper sequence: LOC_Os04g58630.2 (Oryza sativa), 3'ss of exon 10
lower sequence: Vv16s0100g01310.t01 (Vitis vinifera), 3'ss of exon 10
gtataaatattgtctcacacttgtagttcactcatgttaacatgttctggatgtataacatagttactgcaaacttagttgttgggcttaggacctgaggaagtaagggtttactttgttgttatctt---accctgactctgagatta----tcctaacacttggtacactgatttccttagGTTGGTTCCTTCGTACCAGCTTCATCAGCAACATTGCATGCTGTTGATGGAATTTATACTCGAATGGGCGCGTCCGATAGTATTCAGCATGGAACAAGTA
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-----------------------------------------------------------------------------------tgaatcatctcttaaaataccaatttatccttttgttgctattctttgacaaagaatctctcactaccattcataaaaatgtgccctctgaaccctctagGTTGGTTCCTTTGTACCAGCATCATCAGCAAAACTGTGTGTGTTAGATGGCATCCACACCCGAATGGGCTCCTCTGACAGTATCCAGCAAGGAAGGAGCAMapped 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|58653372|gb|CK042052.1|CK042052EST: GTTGCTATATTCGTCAAGTTGCTCTAATTACATTGATGGCCCAG GTTGGTTCCTTCGGACCAGCTTCATCAGCAACATTGCATGCTGTTGATGGA
genomic: GTTGCTATATTCGTCAAGTTGCTCTAATTACATTGATGGCCCAGgtataaatat ... atttccttagGTTGGTTCCTTCGTACCAGCTTCATCAGCAACATTGCATGCTGTTGATGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatcttaccctgactctgagattatcctaacacttggtacactgatttccttagGTTGGTTCCTTCGTACCAGCTTCATCAGCAACATTGCATGCTGTTGATGGAATTTATACTCGAATGGGCGCGTCCGATAGTATTCAGCATGGAACAAGTA
tttcctt CT-rich tract
agattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataaatattgtctcacacttgtagttcactcatgttaacatgttctggatgtataacatagttactgcaaacttagttgttgggcttaggacctgaggaagtaagggtttactttgttgttatcttaccctgactctgagattatcctaacacttggtacactgatttccttagGTTGGTTCCTTCGTACCAGCTTCATCAGCAACATTGCATGCTGTTGATGGAATTTATACTCGAATGGGCGCGTCCGATAGTATTCAGCATGGAACAAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA