Sequence
atgc intronic sequence ATGC exonic sequenceTCTGCAGGCCTTTATTTCCGAGGTCAGCGTATTTGGCAGGCTGCTATGGATGATCTGATGGCCCAAGGAATGAGATATGCTAACCAGgtactgatccttccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaattctaccag
Basic information
species | Oryza sativa |
transcript | LOC_Os07g44070.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g44070.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G160569_T03 (Zea mays), 5'ss of exon 1
-------------TCTGCAGGCCTTTATTTCCGAGGTCAGCGTATTTGGCAGGCTGCTATGGATGATCTGATGGCCCAAGGAATGAGATATGCTAACCAGgtactgatcctt-----ccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaat-tctaccag
|||||||||||||||||||||||||||| ||||||||||| ||||||||||| || ||||||||||||||| | |||||||| |||||| | | ||| || | || || | || || |||| | ||| || | |||| | ||| || ||| | | | ||||||
TCTTTTTCTTTAGGCTGCAGGCCTTTATTTCCGAGGTCAGCGCATTTGGCAGGCCGCTATGGATGACCTAATGGCCCAAGGAATGCGTTATGCTAATCAGgtatttacacttaatttcccctactcttctgttactcatttttctttagcttttcagaggtcattttcatgtccctgatgcaatttatcgtataccag
upper sequence: LOC_Os07g44070.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G160569_T02 (Zea mays), 5'ss of exon 5
TCTGCAGGCCTTTATTTCCGAGGTCAGCGTATTTGGCAGGCTGCTATGGATGATCTGATGGCCCAAGGAATGAGATATGCTAACCAGgtactgatcctt-----ccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaat-tctaccag
|||||||||||||||||||||||||||| ||||||||||| ||||||||||| || ||||||||||||||| | |||||||| |||||| | | ||| || | || || | || || |||| | ||| || | |||| | ||| || ||| | | | ||||||
GCTGCAGGCCTTTATTTCCGAGGTCAGCGCATTTGGCAGGCCGCTATGGATGACCTAATGGCCCAAGGAATGCGTTATGCTAATCAGgtatttacacttaatttcccctactcttctgttactcatttttctttagcttttcagaggtcattttcatgtccctgatgcaatttatcgtataccagMapped 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|5003056|gb|AU068165.1|AU068165EST: AGGCTGCTATGGATGATCTGATGGCCCAAGGAATGAGATATGCTAACCAG GCACTTCTTTCTGGATGCTCTGCTGGTGGTGNTTCAACCATACTTCACTGT
genomic: AGGCTGCTATGGATGATCTGATGGCCCAAGGAATGAGATATGCTAACCAGgtactgatcc ... attctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTGCAGGCCTTTATTTCCGAGGTCAGCGTATTTGGCAGGCTGCTATGGATGATCTGATGGCCCAAGGAATGAGATATGCTAACCAGgtactgatccttccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaattctaccag
- - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA