Sequence
atgc intronic sequence ATGC exonic sequenceTTCTGCTCCAATCTATACACAACCTCGACATCTGCCACCTTCAAAGGTTCTTGATGCTGATGTGACAGACAGTGTTATTGGTGAGGGATGTGTTATTAAAgtaagtagtgttttgttttactatagcatatttgaaaacctatatatagactttatatcctccaaagtatttttcccgtaattcatttactaaaacatttatgccttgatcttgtgcacacag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G163437_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os08g25734.1 (Oryza sativa), 5'ss of exon 6
TTCTGCTCCAATCTATACACAACCTCGACATCTGCCACCTTCAAAGGTTCTTGATGCTGATGTGACAGACAGTGTTATTGGTGAGGGATGTGTTATTAAAgtaagtagtgttttgttttactatagcatatttgaaaacctatatatagactttat-----atcctccaaagtatttttccc---gtaattcatt-tactaaaacatttatgccttgatcttgtgcacacag
||||||||||| ||||||||||||||||| |||| ||||| |||||||||||||||||||||||||||||||| |||||||| || ||||||||||||||||||| |||| ||||| ||| ||| || ||||||| | ||| | ||| ||| | |||| | |||||| || | || ||| || | | | |||||
GTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCCTTCGAAGGTTCTTGATGCTGATGTGACAGACAGTGTCATTGGTGAAGGTTGTGTTATTAAAgtaagta-tgttgtgtttg--tatgttataattcaaaacctcc-tgtagtttctatggtctatctttttttacatttccttcaaagtaatttatcatgctgcaactttcacttttcgtccttgtag------
upper sequence: GRMZM2G163437_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA02G47460.1 (Glycine max), 5'ss of exon 6
TTCTGCTCCAATCTATACACAACCTCGACATCTGCCACCTTCAAAGGTTCTTGATGCTGATGTGACAGACAGTGTTATTGGTGAGGGATGTGTTATTAAAgtaagtagtg--------ttttgttttactatagcatatttgaaaacctatatatagactttatatcctccaaagtatttttcccgtaattcatttactaaaacatttatgccttgatcttgtgcacacag--------
||| |||||||||| || ||||| ||| || |||| || || ||| | |||||||||||||| || || |||||||||||||| |||||||| ||||| ||||||| | | || |||| | ||| || |||| | || || | | | | | | ||| ||||| | | | | ||| | || | |
TTCATCTCCAATCTACACCCAACCACGATATTTGCCTCCCTCTAAGATGCTTGATGCTGATGTCACTGATAGTGTTATTGGTGAAGGATGTGTGATTAAGgtaagtatttcagaaccttcacattctactgatctgctctataaatgagatttatacaattcttaacaaagatgtcaaatataatgagattgatttatttataggaaactaactttgtattccatattttgttccatag
upper sequence: GRMZM2G163437_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA14G01290.1 (Glycine max), 5'ss of exon 6
TTCTGCTCCAATCTATACACAACCTCGACATCTGCCACCTTCAAAGGTTCTTGATGCTGATGTGACAGACAGTGTTATTGGTGAGGGATGTGTTATTAAAgtaagtagtg--------ttttgttttactatagcatatttgaaaacctatatatagactttatatcc----tccaaagtatttttcccgtaattcatttactaaaacat----ttatgccttg-atcttgtgcacacag
||| |||||||||| || ||||| ||| || |||| || || ||| | |||||||||||||| || || |||||||||||||| |||||||| ||||| ||||| | | | || |||| | | | || |||| | || || | | || ||| | ||||| ||||| || | || | | |||||| || ||
TTCATCTCCAATCTACACCCAACCACGATATTTGCCTCCCTCTAAGATGCTTGATGCTGATGTCACTGATAGTGTTATTGGTGAAGGATGTGTGATTAAGgtaagcatttcagaaccttcacattctactgatctgctctgtacatgagatttatacaattcttaacaaagatgtcaaatataatgagattaatttatttataggaaactaaccttgtattccatactttgtgc-catag
upper sequence: GRMZM2G163437_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 5'ss of exon 6
TTCTGCTCCAATCTATACACAACCTCGACATCTGCCACCTTCAAAGGTTCTTGATGCTGATGTGACAGACAGTGTTATTGGTGAGGGATGTGTTATTAAAgtaagtagtgttttgttttactatagcatatttgaaaacctatata-tagactttatatcctc-caaagtatttttcccgtaattcatt-tactaaaacatttatgccttgatc--------ttgtgcacacag
||| |||||||||| || ||||||||| || |||| || || ||| | |||||||||||||| || || ||||||||||||||||| ||||| ||||| |||||| | | | | || ||| | ||| | | | | || || ||| ||||| | || ||| | | | | | ||||| || |||||| |||
TTCCTCTCCAATCTACACCCAACCTCGATATTTGCCCCCATCTAAGATGCTTGATGCTGATGTAACCGATAGTGTTATTGGTGAGGGCTGTGTGATTAAGgtaagttacacatggg--caagacaggtctcttgctgtgtttcatagttggtgtcacatgcttatgaaggctttttataattgttgattatgcagttaagtaagttccttgttcacccttttctgtgcatgcagMapped 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|32941128|gb|CF045947.1|CF045947EST: CAGACAGTGTTATTGGTGAGGGATGTGTTATTAAA AACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAA
genomic: CAGACAGTGTTATTGGTGAGGGATGTGTTATTAAAgtaagtagtg ... gtgcacacagAACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCTGCTCCAATCTATACACAACCTCGACATCTGCCACCTTCAAAGGTTCTTGATGCTGATGTGACAGACAGTGTTATTGGTGAGGGATGTGTTATTAAAgtaagtagtgttttgttttactatagcatatttgaaaacctatatatagactttatatcctccaaagtatttttcccgtaattcatttactaaaacatttatgccttgatcttgtgcacacag
- - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT