Sequence
atgc intronic sequence ATGC exonic sequenceGACTGGATAATGGATCAGTGGGAGAAGAATTTCTACATAACAGCAATAGCTGGATCAGCTAACGGAAGTTCTTTAGTTGTGATGTCCAAAGgtctgggatgtgtttcttattagtcattttatatcccgaccattcttctttgacgatgaattatccatatgtttcatatggacttaatcattttgttgctccccatgagttaacctggcttagttgtgatcacctatagtttgatatgtccattattgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os07g07560.2 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G508368_T01 (Zea mays), 5'ss of exon 7
GACTGGATAATGGATCAGTGGGAGAAGAATTTCTACATAACAGCAATAGCTGGATCAGCTAACGGAAGTTCTTTAGTTGTGATGTCCAAAGgtctgggatgtgtttcttattagtcattttatatcccgac-cattcttctttgacgatgaattatccatatgtttcatatggacttaatcattttgttgctccccatgagttaacctggcttagttgtgatcacctatagtttgatatgtccattattgcag
|||||||||||||| ||||||||||| | | ||||||||||||||| ||||||||| | ||| | || || || ||||| |||||||||||||| | || || || | || ||| | || | ||| |||| | || | | | | | || | | | | | || | ||| | | |
GACTGGATAATGGAGCAGTGGGAGAAAAGCTACTACATAACAGCAATTGCTGGATCATCCAACAGGAGCTCATTGGTTGTCATGTCCAAAGgtcttg-atttgaccttttcttgttattgctcagccttgcatattgatctt---ccatttcctcactactt-tctcgttagcagtgcaaaatcctattgtttctc---------------------------------------------------------
upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G037923_T02 (Zea mays), 5'ss of exon 14
GACTGGATAATGGATCAGTGGGAGAAGAATTTCTACATAACAGCAATAGCTGGATCAGCTAACGGAAGTTCTTTAGTTGTGATGTCCAAAGgtctgggatgtgtttcttattagtcattttatatcccgac-cattcttctttgacgatgaattatccatatgtttcatatggacttaatcattttgttgctccccatgagttaacctggcttagttgtgatcacctatagtttgatatgtccattattgcag
|||||||||||||| ||||||||||| | | ||||||||||||||| ||||||||| | ||||| || || || ||||| |||||||||||||| | || || || | |||||| | | | ||| |||| | || | | | | | | | | | | | || | ||| | | |
GACTGGATAATGGAGCAGTGGGAGAAAAGCTACTACATAACAGCAATTGCTGGATCATCCAACGGGAGCTCATTGGTTGTCATGTCCAAAGgtcttg-atttgaccttttcttgtcattgctcaggcttgcatattgatctt---ccatttcctcactactt-tcccgttagcagtgcaaaatcctattgtttctc---------------------------------------------------------
upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G082099_T01 (Zea mays), 5'ss of exon 8
GACTGGATAATGGATCAGTGGGAGAAGAATTTCTACATAACAGCAATAGCTGGATCAGCTAACGGAAGTTCTTTAGTTGTGATGTCCAAAGgtctgggatgtgtttcttattagtcattttatatcccgac-cattcttctttgacgatgaattatccatatgtttcatatggacttaatcattttgttgctccccatgagttaacctggcttagttgtgatcacctatagtttgatatgtccattattgcag
||||| |||||||| ||||||||||| | | ||||||||||||||| ||||||||| | ||||| || || || ||||| |||||||||||||| | || || || | |||||| | | | ||| |||| | || | | | | | | | | | | | || | ||| | | |
GACTGAATAATGGAGCAGTGGGAGAAAAGCTACTACATAACAGCAATTGCTGGATCATCCAACGGGAGCTCATTGGTTGTCATGTCCAAAGgtcttg-atttgaccttttcttgtcattgctcaggcttgcatattgatctt---ccatttcctcactactt-tcccgttagcagtgcaaaatcctattgtttctc---------------------------------------------------------
upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G164265_T02 (Zea mays), 5'ss of exon 14
GACTGGATAATGGATCAGTGGGAGAAGAATTTCTACATAACAGCAATAGCTGGATCAGCTAACGGAAGTTCTTTAGTTGTGATGTCCAAAGgtctgggatgtg--tttcttattagtcattttatatcccgaccattcttc--tttgacgatgaattatccatatgtttcatatggacttaatcattttgttgctccccatgagttaacctggcttagttgtgatcacctatagtttgatatgtccattattgcag
|||||||||||||| ||||||||||| | || ||||||||||||||| ||||||||| | || || ||||| || ||||| ||||||||||||||| | | |||||||||| | | | | | | | || ||| | | || ||| | | | | |||| || | |
GACTGGATAATGGAGCAGTGGGAGAAAAGTTACTACATAACAGCAATTGCTGGATCAACCAATGGGAGTTCATTGGTTGTCATGTCCAAAGgtctgaattttacttttcttattattgctcacacgtgcatattgaccctccattttctcaccattttcccagtagcagtacaaaatcctaatgtttctct-----------------------------------------------------------------
upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G480263_T01 (Zea mays), 5'ss of exon 10
GACTGGATAATGGATCAGTGGGAGAAGAATTTCTACATAACAGCAATAGCTGGATCAGCTAACGGAAGTTCTTTAGTTGTGATGTCCAAAGgtctgggatgtgtttcttattagtcattttatatcccgac-cattcttctttgacgatgaattatccatatgtttcatatggacttaatcattttgttgctccccatgagttaacctggcttagttgtgatcacctatagtttgatatgtccattattgcag
|||| ||||||||| ||||||||||| | | ||||||||| ||||| ||||||||| | ||||| || || || ||||| |||||||||||||| | || || || | |||||| | | | ||| |||| | || | | | | | | | | | | | || | ||| | | |
GACTAGATAATGGAGCAGTGGGAGAAAAGCTACTACATAACGGCAATTGCTGGATCATCCAACGGGAGCTCATTGGTTGTCATGTCCAAAGgtcttg-atttgaccttttcttgtcattgctcaggcttgcatattgatctt---ccatttcctcactactt-tcccgttagcagtgcaaaatcctattgtttctc---------------------------------------------------------
upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G110085_T01 (Zea mays), 5'ss of exon 9
GACTGGATAATGGATCAGTGGGAGAAGAATTTCTACATAACAGCAATAGCTGGATCAGCTAACGGAAGTTCTTTAGTTGTGATGTCCAAAGgtctgggatgtgtttcttattagtcattttatatcccgac-cattcttctttgacgatgaattatccatatgtttcatatggacttaatcattttgttgctccccatgagttaacctggcttagttgtgatcacctatagtttgatatgtccattattgcag
|||||||||||||| ||||||||||| | | ||||||||||||||| ||||||||| | |||| || || || ||||| |||||||||||||| | || || || | |||||| || | | ||| |||| | || | | | | | | | | | | | || | ||| | | |
GACTGGATAATGGAGCAGTGGGAGAAAAGCTACTACATAACAGCAATTGCTGGATCATCCAACGAGAGCTCATTGGTTGTCATGTCCAAAGgtcttg-atttgacattttcttgtcattgctcatgcttgcatattgatctt---ccatttcctcactactt-tcccgttagcagtgcaaaatcctattgtttctc---------------------------------------------------------
upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 14
GACTGGATAATGGATCAGTGGGAGAAGAATTTCTACATAACAGCAATAGCTGGATCAGCTAACGGAAGTTCTTTAGTTGTGATGTCCAAAGgtctgggatgtgtttcttattagtcattttatatcccgaccattcttctttgacgatgaattatccatatgtttcatatggactt----aatcattttgttgctccccatgagttaacctggcttagttgtgatcacctatagtttgatatgtccattattgcag
|||||||| ||||| ||||||||||| |||| ||| || | |||||||||| ||| ||| |||||||| || ||||| |||||||||||| | || || | ||||||| || | | |||| || || |||| ||| ||| | ||| || |||| ||| | | | |
GACTGGATTATGGAGCAGTGGGAGAAAAATTACTATATCAGTTCAATAGCTGGCGCAGTTAATGGAAGTTCCTTGGTTGTCATGTCCAAAGgtatataat---------atctataattttatgacctactcctccttcacatactattgattaatt-tatttttgaaatgcctttgcaaaatctccttgctattttactt-------------------------------------------------------Mapped 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|218490208|gb|FG966190.1|FG966190EST: AGCAATAGCTGGATCAGCTAACGGAAGTTCTTTAGTTGTGATGTCCAAAG GAACACCTTACTCCCAACAGTCATACAAGGTTAGTGAGTCATTCCCCTTCA
genomic: AGCAATAGCTGGATCAGCTAACGGAAGTTCTTTAGTTGTGATGTCCAAAGgtctgggatg ... attattgcagGAACACCTTACTCCCAACAGTCATACAAGGTTAGTGAGTCATTCCCCTTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GACTGGATAATGGATCAGTGGGAGAAGAATTTCTACATAACAGCAATAGCTGGATCAGCTAACGGAAGTTCTTTAGTTGTGATGTCCAAAGgtctgggatgtgtttcttattagtcattttatatcccgaccattcttctttgacgatgaattatccatatgtttcatatggacttaatcattttgttgctccccatgagttaacctggcttagttgtgatcacctatagtttgatatgtccattattgcag
- - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT