Sequence
atgc intronic sequence ATGC exonic sequence...taagtttgtgatggtaggaagaccctgcaacatgatttcgtttatccatatgagatgtttagtactacatgaaagctaatatattgcctgttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAATCGATCTCTGTGGTCTTCACATCAGCGAGGCAATACACGTCCTGAACTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G830874_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g08270.3 (Oryza sativa), 3'ss of exon 5
taagtttgtgatggtaggaagaccctgcaacatgatttcgtttatccatatgagatgtttagtactacatgaaag--ctaatatattgcctgttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAATCGATCTCTGTGGTCTTCACATCAGCGAGGCAATACACGTCCTGAACTAC
| || | || | || | | || || | || | | | | | ||| | ||||||| ||||| ||| | || | |||||| |||| ||| |||| |||||||| | |||||||||||| ||||||| || || |||||||||||| | |||||||| ||||||| |||||||||
-ggtgtagtagttcctacaacatgctctatc-tgtttaagattctatctttctgtttcttaccatatgatgaaagttctaatccattccatggctttaccagATTTCAAATGCCAGAATTTCAAGGCCTGGTTCAGGAGCAAAATACCCCAATTGACCTGTGTGGTCTTCACGTAAGCGAGGCGATACACGCCCTGAACTATMapped 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|211046344|gb|FL092972.1|FL092972EST: CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAG ATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
genomic: CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAGgtcagatata ... ttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
EST:
gi|211046341|gb|FL092969.1|FL092969EST: CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAG ATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
genomic: CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAGgtcagatata ... ttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatatgagatgtttagtactacatgaaagctaatatattgcctgttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAATCGATCTCTGTGGTCTTCACATCAGCGAGGCAATACACGTCCTGAACTAC
agctaat putative branch site (score: 3)
cctgttccc putative PPT
aaagctaatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taagtttgtgatggtaggaagaccctgcaacatgatttcgtttatccatatgagatgtttagtactacatgaaagctaatatattgcctgttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAATCGATCTCTGTGGTCTTCACATCAGCGAGGCAATACACGTCCTGAACTAC
- - - tgtgatg
- - - - - - - - - - - - ctgcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgcctg