Sequence
atgc intronic sequence ATGC exonic sequence...tttcatttaaacttgatctcaaaggtatgtgcacttatctatgtactttccaaatttgcctaagttttgtacttttgttatcatatttgtttatttgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g62800.1 (Oryza sativa), 3'ss of exon 3
tttcatttaaacttgatctcaaaggtatgtgcacttatctatgtactttccaaatttgcctaagttttgtacttttgttatcat-atttgtttatttgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
|| ||| ||| || |||| | | ||| | | |||| || | || || | | | ||||||||| ||| ||||| ||| ||||||| |||||||| ||||||||||||||| |||| ||||| || || || |||||||||||||| || ||||||||||||||||||||||| || |||||
attgttttcaacaaaatatcaacacaaagataactgttttttgtagcaccctgactt-ccaatttgcttaacttttgttgccatgatttgccactttaaagATGGAATCCTGCTTCTGGAGGTTAATAGAATGCTCAGAGCCGGCGGTTATTTTGCTTGGGCAGCACAGCCTGTTTATAAGCATGAAGAGGCTCAGCAAGA
upper sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA11G34430.1 (Glycine max), 3'ss of exon 3
--------------------------------------------------------------------------------tttcatttaaacttgatctcaaag---gtatgt-----gcacttatctatgtactttccaaatttgcctaagttttgtacttttgttatcatatttg--tttatttg-----aagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
| || | ||| || | || | |||| | | | | | || ||||| || | || || |||||| || || ||| ||| ||||||| || ||||| || || || ||||| |||| ||||| ||||| ||||||| ||||| ||||| || ||||||||||||||||| | | ||||
gtatgcttttctctcttgtttgatgtgcaattgttcttagtatcaatgaggagaaaaattatatggagaggtctacaacagctaatcaacactagaaactagagaatgcatgttggaagtgccgcttttgttgctagtatgatttgtatacaccat-tatttgtgttatgatgcttaaacttacttgtgatgaagATGGGATACTGCTGCTTGAAGTCAATAGGATGCTAAGAGCAGGAGGGTACTTTGTCTGGGCTGCCCAGCCGGTTTATAAGCATGAAGAAGTTTTAGAAGA
upper sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G03890.2 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------------------------------tttcatttaaacttgatctcaaag-gtatgt-gcacttatctatgtactttccaa--atttgcctaagt-------tttgtacttttgttatcatatttgtttatt-tgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
| || | | | || | | | |||| | | | | | | || | | ||||| || | ||||| ||| | | | | || || | ||||||||| || ||||| || || |||||||| |||| ||||| ||||| ||||||| ||||| ||||| || ||||||||||||||||| | | |||
ggtatgcgtttttctctcttgtttgatgtgcaattgttcttggtaacaatgaggagaaaaattatatgcagaggtctataacagctaatcaacaatagaaacgagaatgcatgttggaactgccactttttttgctagtgatttgtatacatcattttttttgtgttttgatgcttaaacttacttgtgatgaaGATGGGATACTGCTTCTTGAAGTTAATAGGATGCTAAGAGCAGGAGGGTACTTTGTCTGGGCTGCCCAGCCAGTTTATAAGCATGAAGAAGTTTTAGAAG-
upper sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G03890.1 (Glycine max), 3'ss of exon 3
----------------------------------------------------------------------------------tttcatttaaacttgatctcaaag-gtatgt-gcacttatctatgtactttccaa--atttgcctaagt-------tttgtacttttgttatcatatttgtttatt-tgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
| || | | | || | | | |||| | | | | | | || | | ||||| || | ||||| ||| | | | | || || | ||||||||| || ||||| || || |||||||| |||| ||||| ||||| ||||||| ||||| ||||| || ||||||||||||||||| | | ||||
gtatgcgtttttctctcttgtttgatgtgcaattgttcttggtaacaatgaggagaaaaattatatgcagaggtctataacagctaatcaacaatagaaacgagaatgcatgttggaactgccactttttttgctagtgatttgtatacatcattttttttgtgttttgatgcttaaacttacttgtgatgaagATGGGATACTGCTTCTTGAAGTTAATAGGATGCTAAGAGCAGGAGGGTACTTTGTCTGGGCTGCCCAGCCAGTTTATAAGCATGAAGAAGTTTTAGAAGA
upper sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA14G07190.1 (Glycine max), 3'ss of exon 3
--tttcatttaaacttgatctcaaaggtatgtgcacttatctatgtactttccaaatttgcctaagttttgtacttttgttatcatatttgtttatt-tgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
|| | | | | || |||| | | | | ||||||| || | | ||| | ||| | | | | ||| || | |||||||||||| |||| || || |||||||| |||| || || ||||| ||||||| |||||| |||||||| |||||||| ||||| || | | ||||
taaatcttattacttcaatttcaatgtgctcctccaatctctatgttggttgctcacttg---gaatttcttctgacacctcttttttttacttgtggtgaagATGGTATTTTGCTGCTAGAAGTTAATAGGATGCTAAGGGCAGGAGGGTACTTTGTTTGGGCTGCCCAACCGGTTTATAAACATGAGGAAGTTTTAGAAGA
upper sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT5G06050.1 (Arabidopsis thaliana), 3'ss of exon 3
tttcatttaaacttgatctcaaaggtatgtgcacttatctatgtactttccaaatttgcctaagttttgtacttttgttatcatatttgtttatttgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
||| | || | | || | || | | | ||| || | || || | | | || |||| || || || || |||||| ||||||||||| || |||||||| ||||| | || ||||| || |||| ||||||||| |||||||| |||||||||||| ||||| ||||
tttaacaccaaacttttaagtaaaaaacgtactgaataccaagtatttctaagcttctactgatagattcttctgcattgtcattgtttttgatatgtagATGGGATCCTGCTCCTTGAAGTTAATAGGATGCTTCGTGCCGGAGGATATTTTGTTTGGGCAGCACAACCTGTATATAAGCATGAAAAGGCCTTGGAAGA
upper sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT2G39750.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------------------------tttcatttaaacttgatctcaaagg--tatgtgcacttatctatgtactttccaaatttgcctaagttttgtacttttgttatcatatttgtttatttgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
|| || || | | | || | |||| ||| || | ||| | || | | || | | || | | ||| || | ||||||| || ||||||| ||| | |||||| |||| | |||||||| || ||||||||||| || || |||||||||||||||||| || ||||
gtaaggttctatggtgtgcttgattcttcacctaatacatcagaaaaagattaagattgcacctactgtaatttttaactccctgtgtgaactatgctctagcttttattacttgtacagaaaattctcactctgctgtttcattctttgtgataaagATGGAATTTTGCTCCTTGAGATCAATAGAATGCTGCGCGCTGGAGGATATTTTGCTTGGGCTGCACAGCCTGTTTATAAGCATGAACCCGCTTTGGAAGA
upper sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 3
tttcatttaaacttgatctcaaaggtatgtgcacttatctatgtactttccaaatttgcctaagttttgtacttttgttatcatatttgtttatttga---agATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
|| || || | | | ||| | | | | | || | | || | || | ||| | | | | |||||| || || || || || ||||||||| |||||||||| ||||||||||||| |||||| || ||||| ||||| || ||||| || | |||||
-----------gttaatttctg-gctttttgcttctcctctaatgttatttgagctttagcatagtaagtgactacagcattttgtttctatgaattacacagATGGGATACTTCTTCTTGAAGTTAATAGAATGCTTAGAGCAGGAGGCTACTTTGTTTGGGCTGCACAACCCGTTTACAAACATGAGGATAACTTGCAAGA
upper sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 3
-----tttcatttaaacttgatctcaaaggtatgtgcacttatctatgtactttccaaatttgcctaagttttgtacttttgttatcatatttgtttatttgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
| || ||| | | || ||| ||| ||| | ||| | | | || | || | || | || | || | ||||||| || ||||| || ||||| || || |||| || || ||||| |||||||||||||| || || ||||||||||| ||||||| | || |||||
agagggatggaatacttacattcttgatgactaaagctctttaatattgactgt-----ttttcttttttcttttttttcttttgtttgtttggcttgtgataagATGGAATTCTGCTTCTTGAGGTCAACAGGATGCTAAGGGCAGGAGGATACTTTGCTTGGGCTGCACAGCCTGTTTATAAACATGAAGGGAACCTCCAAGA
upper sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv13s0019g02250.t01 (Vitis vinifera), 3'ss of exon 3
tttcatttaaacttgatctcaaaggtatgtgcacttatctatgtactttccaaatttgcctaag----ttttgtacttttgttatcatattt-gtttatttgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
| || || | | || | || | | | || || |||||| | | ||| | | || | | ||| ||| ||||||||| ||| |||| || ||||| |||||| ||||| | || ||||| ||||||||||||||||| || || ||||||||||||||||| || | ||||
----aagagaaagagaaagctcacttaag-atttttttttgtttaattgttaaatttactaggggacactttctgatcatgctttttcctttcattttgatgaagATGGAATCTTGCTGCTTGAGGTAAATAGAATGCTTCGGGCAGGAGGATACTTTGCTTGGGCAGCACAGCCAGTTTATAAGCATGAAGAAAACCTAGAAGAMapped 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|211358804|gb|FL192107.1|FL192107EST: GTTTGATGTAATACATTGCTCACGCTGCCGAATAAATTGGACCCGTGATG ATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACT
genomic: GTTTGATATAATACATTGCTCACGCTGCCGAATAAATTGGACCCGTGATGgtgagctgtg ... ttatttgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACT
EST:
gi|211358802|gb|FL192105.1|FL192105EST: GTTTGATGTAATACATTGCTCACGCTGCCGAATAAATTGGACCCGTGATG ATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACT
genomic: GTTTGATATAATACATTGCTCACGCTGCCGAATAAATTGGACCCGTGATGgtgagctgtg ... ttatttgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttccaaatttgcctaagttttgtacttttgttatcatatttgtttatttgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
tttgttt CT-rich tract
tacttttgttatcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcatttaaacttgatctcaaaggtatgtgcacttatctatgtactttccaaatttgcctaagttttgtacttttgttatcatatttgtttatttgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG