Sequence
atgc intronic sequence ATGC exonic sequencegtccggttgcactgctgtggtattgctgagtctgtattttaataatcgttgtgcatagaattcgttgggtttttataagttactaacaccgcctacttcaactctcttctgcagGAGCCAGCCTCAGTAAATTTTGATGTATTACCAACCTTGGATATGTTTTGAATTTCGGGGCTGGTCATCAATTCATTCCTTCAACATGTTGCAGAAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G871936_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g31440.3 (Oryza sativa), 3'ss of exon 2
gtccggttgcactgctgtggtattgctgagtctgtattttaataatcgttgtgcatagaattcgttgggtttttataagttactaacac-cgcctacttcaactctcttctgcagGAGCCAGCCTCAGTAAATTTTGATGTATTACCAACCTTGGATATGTTTTGAATTTCGGGGCTGG-TCATCAATTCATTCCTTCAACATGT-TGCAGAAGCAG
|| || ||| | || | | | ||| | || || | || | || | | ||||| | ||||||||||| ||| | | || |||||||||||||||| | ||| |||||||| |||| |||||||||||||||||||||||||||| | ||| ||| ||| | || | | | || | ||| || |
-------tgttttgttgtcatgttac--attatgttctacaaaaagcttt------aaaaattacggcacttttacatgttactaacacgcgcacatctgaattctcttctgcagGAGCAGGTCTCTGTAAATTTAGATGCATTACCAACCTTGGATATGTTTTGAATTGCAGGGTTGGATCAGTAGTTTAATGATCTCACCTACATGCTGAGGA--
upper sequence: GRMZM5G871936_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g31440.2 (Oryza sativa), 3'ss of exon 3
gtccggttgcactgctgtggtattgctgagtctgtattttaataatcgttgtgcatagaattcgttgggtttttataagttactaacac-cgcctacttcaactctcttctgcagGAGCCAGCCTCAGTAAATTTTGATGTATTACCAACCTTGGATATGTTTTGAATTTCGGGGCTGG-TCATCAATTCA----TTCCTTCAACATGTTGCAGAAGCAG-----------------------------------------------------
|| | ||||||||||| ||| | | || |||||||||||||||| | ||| |||||||| |||| |||||||||||||||||||||||||||| | ||| ||| ||| | || | | | | ||||| || || ||
-------------------------------------------------------------------------tacatgttactaacacgcgcacatctgaattctcttctgcaggagcaggtctctgtaaatttagatgcattaccaaccttggatatgttttgaattgcagGGTTGGATCAGTAGTTTAATGATCTCACCTACATGCTGAGGAGTGAGGAGCTAGAAATGTATTGCTGACGCCAAATGGATGTAGAAATGCATACCAAGATMapped 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|71773525|gb|DR971425.1|DR971425EST: TCGCAGTTTGCCACGATTTCTTAAACAATCAAGCCATCGAGACTCTAGAG GAGCCAGCCTCAGTAAATTTTGATGTATTACCAACCTTGGATATGTTTTGA
genomic: TCGCAGTTTGCCACGATTTCTTAAACAATCAAGCCATCGAGACTCTAGAGgtccggttgc ... tcttctgcagGAGCCAGCCTCAGTAAATTTTGATGTATTACCAACCTTGGATATGTTTTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcgttgggtttttataagttactaacaccgcctacttcaactctcttctgcagGAGCCAGCCTCAGTAAATTTTGATGTATTACCAACCTTGGATATGTTTTGAATTTCGGGGCTGGTCATCAATTCATTCCTTCAACATGTTGCAGAAGCAG
tactaac putative branch site (score: 0)
cttcaactctcttct putative PPT
tttttataagttacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccggttgcactgctgtggtattgctgagtctgtattttaataatcgttgtgcatagaattcgttgggtttttataagttactaacaccgcctacttcaactctcttctgcagGAGCCAGCCTCAGTAAATTTTGATGTATTACCAACCTTGGATATGTTTTGAATTTCGGGGCTGGTCATCAATTCATTCCTTCAACATGTTGCAGAAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC