Sequence
atgc intronic sequence ATGC exonic sequence...ctggtcatttaacacatttaccattttattgattattccaaatgatgtatataccagtctaattcccaaacatatatgccgccccattatggatttgcagAGACATTTGTACGAGCTGACGGTGCATTTATCCCATTTGCTGATGACTTTGACATTTCCACCGTCACGACTGTAGTTAGGGGAGTCGGTGACATTGGGGA
Basic information
species | Oryza sativa |
transcript | LOC_Os04g52479.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os04g52479.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G102346_T01 (Zea mays), 3'ss of exon 4
ctggtcatttaacacatttaccattttattgattattccaaatg-atgtatataccagtctaattcccaaacatatatgccgccccattatggatttgcagAGACATTTGTACGAGCTGACGGTGCATTTATCCCATTTGCTGATGACTTTGACATTTCCACCGTCACGACTGTAGTTAGGGGAGTCGGTGACATTGGGGA
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atgattccaaatgatgtacacaatgtt-ctaattcccaaacatacatgcatgccatggtctgattcccaaacatacttgctatgttgtaatgagcctgcagAGACATTTGTACGCGCCGACGGGGCATTCATCCCATTTGCTCACGACTTCGACATCTCCACAGTCACAACTACAGTTAGGGGTGTTGGTGACATTGGGGA
upper sequence: LOC_Os04g52479.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G033724_T02 (Zea mays), 3'ss of exon 4
-ctggtcatttaacacatttaccattttattgattattccaaatgatgtatataccagtctaattcccaaacatatatgccgccccattatggatttgcagAGACATTTGTACGAGCTGACGGTGCATTTATCCCATTTGCTGATGACTTTGACATTTCCACCGTCACGACTGTAGTTAGGGGAGTCGGTGACATTGGGGA
||| | ||| | | || || | || | ||||| || || || ||||||||||||||||| ||| | ||| || |||||||||||||||||| ||||| || ||||| |||||||||||| ||||||||||||| ||||| ||||| ||| ||||||||| || ||||| ||||||||
gctgatgattccaaatgatttacacaatgttc-taattcccaaacatacatgccatgttctaattcccaaacatacgtgctatgttctaatgaatctgcagAGACATTTGTACGTGCTGATGGGGCATTCATCCCATTTGCTCATGACTTTGACATCTCCACAGTCACAACTACAGTTAGGGGTGTTGGTGATATTGGGGA
upper sequence: LOC_Os04g52479.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA08G18300.1 (Glycine max), 3'ss of exon 4
-----------ctggtcatttaacacatttacc--attttattgattattccaaatgatgtatataccagtctaattcccaaacat-atatgccgccccattatggatttgcagAGACATTTGTACGAGCTGACGGTGCATTTATCCCATTTGCTGATGACTTTGACATTTCCACCGTCACGACTGTAGTTAGGGGAGTCGGTGACATTGGGGA
| | | ||| |||||| || ||| | || | | || || || | | | | | || | | | | | ||||||||| ||||| ||||||| |||||||| || || |||||||||||||||||||| ||||| || || ||| ||| ||||| || || || ||||| ||
gtaacataaatttaggagtctaattgatttacttgggttacttgcattttgttccccacgcatgctcc---ttagtcctcgctcgtcatgagtcatgatgtgtttcttgtgcagAGACTTTTGTGAGAGCTGATGGTGCATTCATTCCTTTTGCTGATGACTTTGACATGTCCACTGTTACTACTTCAGTGAGGGGTGTTGGAGATATTGGTGA
upper sequence: LOC_Os04g52479.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA15G40700.1 (Glycine max), 3'ss of exon 4
---ctggtcatttaacacatttaccattttattgattattccaaatgatgtatataccagtctaattcccaaacat-atatgccgccccattatggatttgcagAGACATTTGTACGAGCTGACGGTGCATTTATCCCATTTGCTGATGACTTTGACATTTCCACCGTCACGACTGTAGTTAGGGGAGTCGGTGACATTGGGGA
||||| | | || || ||| || || | || |||| | | | | | | | || | || || | ||||||||| ||||| ||||||| |||||||| || || |||||||||||||||||||| ||||| || || ||| ||| ||||| || || || ||||| ||
aattcaaacatttcat-ctcttttcactttcacacccctttcattcctt---taaaccaaacatacccttagtcctcacttgtcatgatatgattcttgtgcagAGACTTTTGTGAGAGCTGATGGTGCATTCATTCCTTTTGCTGATGACTTTGACATGTCCACTGTTACTACTTCAGTGAGGGGTGTTGGAGATATTGGTGA
upper sequence: LOC_Os04g52479.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA20G02500.1 (Glycine max), 3'ss of exon 3
ctggtcatttaacacatttaccattttattgattattccaaatgatgtatataccagtctaattcccaa-acatatatgccgccccattatggatttgcagAGACATTTGTACGAGCTGACGGTGCATTTATCCCATTTGCTGATGACTTTGACATTTCCACCGTCACGACTGTAGTTAGGGGAGTCGGTGACATTGGGGA
| || | | || |||| || || || | | | | | | || | | | ||| | | || | ||||||| |||||||| |||||||| || ||||| ||||||||||| || || || | || || || | || || | || || || || || || ||
gttttcttatttcaaatttgttggtt-atgattttggcttagaattttctgttgggtcctgacccatgacgcatgcacattacaattttgttatcttgcagAAACATTTGTGCGAGCTGATGGGGCATTCATCCCATTTGCAGAAGATTTCAATATGAACAATGTAATCACAACTGTAAAAGGTGTAGGGGAGATCGGTGA
upper sequence: LOC_Os04g52479.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA07G34800.1 (Glycine max), 3'ss of exon 4
--ctggtcatttaacacatttaccatttta-ttgattattccaaatgatgtatataccagtctaattcccaaacatatatgccgccccattatggatttgcagAGACATTTGTACGAGCTGACGGTGCATTTATCCCATTTGCTGATGACTTTGACATTTCCACCGTCACGACTGTAGTTAGGGGAGTCGGTGACATTGGGGA
| ||| || ||| ||||| | | ||| || || ||| | | | | |||| | | || | ||||||| |||||||| |||||||| || ||||| ||||||||||| || || || | || || || | || || | || || || || || | ||
ctcatttcaattttgttggttatgattttggcttagaattttctgtgg-gtcctgacc--cttgactgctgcacatgcacattacaattttgttatcttgcagAAACATTTGTGCGAGCTGATGGGGCATTCATCCCATTTGCAGAAGATTTCAATATGAACAATGTAATCACAACTGTAAAAGGTGTAGGGGAGATCAGTGA
upper sequence: LOC_Os04g52479.3 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv19s0027g00520.t01 (Vitis vinifera), 3'ss of exon 3
ctggtcatttaacacatttaccattttattgattatt--ccaaatgatgtatataccagtctaattcccaaacatatatgccgccccattatggatttgcagAGACATTTGTACGAGCTGACGGTGCATTTATCCCATTTGCTGATGACTTTGACATTTCCACCGTCACGACTGTAGTTAGGGGAGTCGGTGACATTGGGGA
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gataaaattgactattttgacaaattggtttcccagtaatttgataatcttgtcatctcctgaaccccatagtacaaattacggtttgctgc--atttgcagAGACATTTGTGAGAGCGGATGGGGCATTCATACCATTTGCTGATGATTTTGACATGAGCACAATAACAACATTGGTAAAAGGTGTAGGAGAGATAGGAGAMapped 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|2428270|gb|C72733.1|C72733EST: TTTCATCACAGATGACGTTTGGTATGGAATCTATGCTGGAACAAACCCAG AGACATTTGTACGAGCTGACGGTGCATTTATCCCATTTGCTGATGACTTTG
genomic: TTTCATCACAGATGACGTTTGGTATGGAATCTATGCTGGAACAAACCCAGgtagagcagt ... ggatttgcagAGACATTTGTACGAGCTGACGGTGCATTTATCCCATTTGCTGATGACTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtatataccagtctaattcccaaacatatatgccgccccattatggatttgcagAGACATTTGTACGAGCTGACGGTGCATTTATCCCATTTGCTGATGACTTTGACATTTCCACCGTCACGACTGTAGTTAGGGGAGTCGGTGACATTGGGGA
gtctaat putative branch site (score: 3)
aaacatatat TA-rich tract