Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgattgcatgaatgccaattttttaaatattttctaagaataaccgaaatgtattcgtttatttgtattttttagttcaagaatttttcgtttggtactgatccgaattaccaattgttaactgatttttaccagAATGGATGAAGCTAGGCAGCCATTGTCCAGAAAAGTCCCAATTCCTTCAAGTCAGATTAACCCCTATAGAATGGTTATCATAATTCGGCTGGTGGTTTTG
Basic information
species | Oryza sativa |
transcript | LOC_Os07g24190.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g24190.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G028353_T02 (Zea mays), 3'ss of exon 5
gtatgtgattgcatgaatgccaattttttaaatattttctaagaataaccgaaatgtattcgtttatttgtattttttagttcaagaatttttcgtttggtactgatccgaattaccaattgttaactga-----tttttaccagAATGGATGAAGCTAGGCAGCCATTGTCCAGAAAAGTCCCAATTCCTTCAAGTCAGATTAACCCCTATAGAATGGTTATCATAATTCGGCTGGTGGTTTTG
| || | ||| | | | || | || | || | || || |||| || || || || | ||| |||| | |||||||||||||||||| | || || || ||||||| ||| | || |||| ||||| ||||| || || ||||| ||| ||||||| |||||||| |||||||||
------------------------------------------caccttccatttggcatt--tccagaaggatatatttgctcttgt-cttgctacgtgctactagacccaagcactaacttttagctgaaattttctttaccagAATGGATGAATCAAGACAACCGCTGTCCAGGAAAATTCCGCTTCCATCAAGCCAGATCAATCCATATAGGATGATTATCATTATTCGGCTTGTGGTTTTG
upper sequence: LOC_Os07g24190.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G025231_T02 (Zea mays), 3'ss of exon 5
gtatgtgattgcatgaatgccaattttttaaatattttctaagaataaccgaaatgtattcgtttatttgtattttttagttcaagaatttttcgtttggtactgatccgaattaccaattgttaactgatttttaccagAATGGATGAAGCTAGGCAGCCATTGTCCAGAAAAGTCCCAATTCCTTCAAGTCAGATTAACCCCTATAGAATGGTTATCATAATTCGGCTGGTGGTTTTG
| | | | | | | ||| || ||| || | | || | | || | ||||| ||||| | || || | |||||||||||||||||||| || || | | ||||||| ||| | ||| |||| ||||| |||||||| || ||||| ||| ||||||| |||||||| |||||||||
--------------------------------ttctatttggtatttccagaagcagatc--tttgcttctgtcttgttact--agctactagacccaagtactagatt---ttacctgattttttctt-tctttaccagAATGGATGAAGCAAGACAACAACTGTCCAGGAAAATTCCACTTCCATCAAGCCAGATTAATCCATATAGGATGATTATCATTATTCGGCTTGTGGTTTTGMapped 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|88412790|gb|CI576054.1|CI576054EST: CATAGGATTTTCTCCCCTGTAGAATTGCTTTATCACTTTGGCTGGACAAA AATGGATGAAGCTAGGCAGCCATTGTCCAGAAAAGTCCCAATTCCTTCAAG
genomic: CATAGGATTTTCTCCCCTGTAGAATTGCTTTATCACTTTGGCTGGACAAAgtatgtgatt ... tttttaccagAATGGATGAAGCTAGGCAGCCATTGTCCAGAAAAGTCCCAATTCCTTCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatttttcgtttggtactgatccgaattaccaattgttaactgatttttaccagAATGGATGAAGCTAGGCAGCCATTGTCCAGAAAAGTCCCAATTCCTTCAAGTCAGATTAACCCCTATAGAATGGTTATCATAATTCGGCTGGTGGTTTTG
tttttacc CT-rich tract
ttaactgattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgattgcatgaatgccaattttttaaatattttctaagaataaccgaaatgtattcgtttatttgtattttttagttcaagaatttttcgtttggtactgatccgaattaccaattgttaactgatttttaccagAATGGATGAAGCTAGGCAGCCATTGTCCAGAAAAGTCCCAATTCCTTCAAGTCAGATTAACCCCTATAGAATGGTTATCATAATTCGGCTGGTGGTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG