Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgctgaaactgattagttcatttttacataatctgcagtgagcagaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCGGAGAATATGAACTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G006428_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 3'ss of exon 6
gtgagtgctgaaactgattagttcatttttacataatctgcagtgagcagaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCGGAGAATATGAACTG
|||||| ||| | ||| | ||||||| | ||| |||| | | ||||| | | ||| |||||||| ||||||||||||||||| |||||||||||||||||||| ||||||||||||||||||||||||||||| || |||||||||||
gtgagtactggacctg-ccatttcatttcattgtgatcagcagggcataaaccatttgaaataaaatttg--cagTGCACTGAGGAAGCTCATCGTCCGGTAGACTGTGCCACTGTTTCAAAGTGGATCCTCAAGAACAGTGCGGAGTCTGAAAATATGAACTG
upper sequence: GRMZM2G006428_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT1G65430.1 (Arabidopsis thaliana), 3'ss of exon 6
----------------gtgagtgctgaaactgattagtt----catt-tttaca--taatctgcagtgagcagaccatat-attttcttctt------ttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCGGAGAATATGAACTG
|| || | | || | || | |||| |||| | | | || | | ||||| | | ||| || | | | ||||| | || |||||||| ||||| ||||| |||| ||||||||| |||||| | | ||||| ||||| ||||||||||||||||| ||
gtaagttacgctatcagttagagttagaatagtttcatctttccattgtttagaatttaattgacacaactataccatgtcacttttatcgtcatgggtctgcagTGTGCTGAAGAAGCTCACCGTCCTGTAGATTGTGACACTGTTTCTAAGTGGGTATTGAAGAATAGTGCTGAGTCGGAGAATATGAATTG
upper sequence: GRMZM2G006428_T01 (Zea mays), 3'ss of exon 6
lower sequence: EFJ08409 (Selaginella moellendorffii), 3'ss of exon 6
gtgagtgctgaaactgattagttcatttttacataatctgcagtgagcagaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCGGAGAATATGAACTG
| || || || ||| | ||| || | || | | ||| || ||||| |||||||| || || || ||||| |||| |||||| | |||||||||||||||||||| ||||||||||| || ||||||||
---------gtaaatgtttttttcttctttttgatgtcgcttg-----aggtttctgacgcttggttttctttagTGCTTAGAGGAAGCGCACCGACCGGTAGATTGTGAGACTGTTGCAAAGTGGATCCTCAAGAACAGCGCGGAGTCGGAAAACATGAACTG
upper sequence: GRMZM2G006428_T01 (Zea mays), 3'ss of exon 6
lower sequence: EFJ15174 (Selaginella moellendorffii), 3'ss of exon 6
gtgagtgctgaaactgattagttcatttttacataatctgcagtgagcagaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCGGAGAATATGAACTG
| | | || ||| |||| | | ||| || | | || || | ||| ||||| |||||||| || || || ||||| |||| |||||| | |||||||||||||||||||| |||||||| || || ||||||||
------gtaaatgtttttttcttctttttgatgtcgcctggggtt------tctgacgcttggttttcttt--agTGCTTAGAGGAAGCGCACCGACCGGTAGATTGTGAGACTGTTGCAAAGTGGATCCTCAAGAACAGCGCGGAGTCAGAAAACATGAACTGMapped 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|76281609|gb|DV021177.1|DV021177EST: GTGGCAGCTATGACGTTAATTGCAACTGTTCATATGGGTTTTGTTGGAAT TGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGG
genomic: GTGGCAGCTATGACGTTAATTGCAACTGTTCATATGGGTTTTGTTGGAATgtgagtgctg ... cttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcatttttacataatctgcagtgagcagaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCGGAGAATATGAACTG
ccatatattttcttct CT-rich tract
atatattttcttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgctgaaactgattagttcatttttacataatctgcagtgagcagaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCGGAGAATATGAACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA