Sequence
atgc intronic sequence ATGC exonic sequence...tgtggcacatttagccacaaaccaaacaggccctaaatgccacatctcattgattagctattctgtatgtgcggcttacggtaaactcatgtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g17840.1 (Oryza sativa), 3'ss of exon 2
tgtggcacatttagccacaaaccaaacaggccctaaatgccacatctcattgattagctattctgta--tgtgcggctta----cggtaaactcatgtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
|| || || || | | ||| |||| | ||| ||| | ||||| ||| |||| |||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
---------------------gtaagcat-cctaaacttctttctcttgctgatgtgacattttgtcgcaatttagCTTATTATTGGTGAACTTGCTGTTGCACAGTGAGAATATCATCTGGAAGGCGTTTAGCCCCACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGA------------------------------
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g17830.1 (Oryza sativa), 3'ss of exon 2
tgtggcacatttagccacaaaccaaacaggccctaaatgccacatctcattgattagctattctgta--tgtgcggctta----cggtaaactcatgtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
| | | | || | || | || ||| | |||| | ||| ||| | ||||| ||| |||| |||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
-------------gtaagcatcttaaatttctttatcttacat-tcttactgatgtgacattttgttacaatttagCTTATTATTGGTGAACTTGCTGTTGCACAGTGAGAATATCATCTGGAAGGCGTTTAGCCCCACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGA------------------------------
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G34370.1 (Glycine max), 3'ss of exon 3
----------------------tgtggcacatttagccacaaaccaaacaggccctaaatgccacatctcattgattagc-----tattc-----tgtatgtgcggcttacggtaaactca-tgtccatgt---agTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
|| | | | ||| || | | | | || || | | || || | |||| | ||| | |||| || || | | | | | ||||| || || || |||||||| ||||| ||||| ||||| |||||||||||||| |||||||||||||| || || ||||| |||||||| | |||||
gtaaatttctacttttccctgatgagatatttccagcttttaattata-atgttcttgttgtcttctagcaactgctaaccaggatatttaaccatttatctaatacttaaatggaattcccttttcgtttttcagTGAAAACATTATATGGAAGGCATTTAGTCCAACCACCATTAACAGTGGGCGTGGAGCTGAATTTGAAGGTGCTGTTATTGCTCTGTTCCATTTGTTGATA
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G17950.1 (Glycine max), 3'ss of exon 3
----------------------tgtggcacatttagccacaaaccaaacaggccctaaatgccac--atctcattgattagctattctgtatgtgcggcttacggtaaactcatgtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
| ||| || | | | || | | | | | | || | | || | | | | ||||| || ||||| || ||||| ||||| || |||||||| || ||||| |||||||| ||||| ||||||||||| || || |||||||| | |||||| | |||||
gtaagttttcttgttaataacttacaatttattccatcattgagcttgtgtctcatagaaactattgaacaaactgtatggtcttttatcaaaaacttgtatgaattctctcattatgttgcagTGAAAACATCATATGGAAAGCATTTAGCCCCACCACCATTAACAGTGGACGTGGAGCTGAATTTGAGGGTGCTGTCATTGCTCTATTCCATTTGTTGATA
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G35990.1 (Glycine max), 3'ss of exon 3
---------------tgtggcacattta--gccacaaaccaaacaggccctaaatgccacatctcattgattagctattctgtatgtgcggct------tacggtaaactcatgtccatgt--------agTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
| | |||| || || | | | | || || | | || || | | ||| | | | ||| ||| || || ||| ||||| || || || |||||||| ||||| || || || || |||||||| ||||| |||||||||||||| || || ||||| |||||||| | ||||
gtaaatttctaccctaacgatatatttcctgcttgtaatctataatgttcttgttgtcttctagcaactgctaaccagaatgtttaaccatttatcaaatacttaaaaggaattcccttgtcatttttcagTGAAAACATTATATGGAAGGCATTTAGTCCCACCACTATTAACAGTGGACGTGGAGCTGAATTTGAAGGTGCTGTTATTGCTCTGTTCCATTTGCTGATA
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G32680.1 (Glycine max), 3'ss of exon 3
-----------------------tgtggcacatttagccacaa-accaaacaggccctaaatgccacatctcattga--ttagctattctgtatgtgcggcttacggtaaactcatgtcca---tgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
| | | | | || || | | | | | || || | | | | | | | ||| |||| || || | || ||||| || ||||| ||||| || ||||| || || ||||| |||||||| ||||| |||||||||||||| || |||||||| | |||||| | |||||
gtaagttttattgtcccttaatttattgtataatttattccagcatcgagcttgtgtctcatagcaactattagcaaagtgtatggtcttttataaaaaacttatatgaattctctgattacattgcagTGAAAACATCATATGGAAAGCATTTAGTCCCACCACCATTAACAGTGGACGTGGAGCTGAATTTGAAGGTGCTGTCATTGCTCTATTCCATTTGTTGATA
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT1G78720.1 (Arabidopsis thaliana), 3'ss of exon 2
tgtggcacatttagccacaaaccaaacaggccctaaatgccacatctcattgattagctattctgtatgtg-cggcttacggtaaactcatgtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
| | | | || | | | || | | | | || || | | | | | | | | | |||||| | || || ||||| || || || || ||||||||||||||||||||||| ||| |||||||||| || || ||||| | ||||| || | |||
----------------gtgagttttaagtactccaacgtctagctttctcggttaaaccgttatgcgcatttcagatgttaatggagtt-tcttttcttagTGAAAGCATTATATGGAAAGCATTCAGTCCTACAACCATCAACAGTGGGCGTGGAGCTCAATTTGAAGGAGCTGTTATTGCTCTTTTCCACCTTCTCATT
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv19s0014g01020.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------------------------------------tgtggcacatttagccacaaaccaaacaggccctaaatgccaca-tctcatt----gattagctatt--ctgtatgtgcggcttacggtaa--actcatgtccat--gtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
|| | | |||| | | | || ||| || ||||||| | || | ||| || || | | | || | || || | ||||| || |||||||||||||| |||||||| || || || || || || ||||| |||||||||||||| || || ||||| | |||||||| | ||
gtgagcatctggttctttttctgggattttttttattaatttatcattttgaacatggaatatttgaagaagcttta-ctatctagcagccagcgtctggtgaatgtggtctcatttctgggttgaccattaactctactgtcaaatagtgacaattgttttgatcaattggcagTGAAAACATCATCTGGAAGGCTTTTAGCCCCACCACTATTAATAGCGGTCGTGGAGCTGAATTTGAAGGTGCCGTTATTGCTCTCTTCCATCTGCTAATA
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s2574g00010.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------------------------------------------------------------tgtggcacatttagccacaaaccaaaca-ggccctaaatgccacatc--tcattgatta-gctattctgtatgtgcggcttacggtaaactcatgtccat--gtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
||| || || | || || || | | | | |||| | | || | ||| ||| | | | || || | ||||| || |||||||||||||| |||||||| || || || || ||||| ||||| |||||||||||||| || || ||||| | |||||||| | ||
gttagcatctgcttctttttctgggattttttttaattaatttatgattttgaacatggaatatttgaagaagctttattgtctagcagccagtgtctggtgaatggtgggcccattttctgggtggaccattaactctactgtcaagtagtgattgctaatgaattgttttgatcaattggcagTGAAAACATCATCTGGAAGGCTTTTAGCCCCACCACTATTAATAGTGGTCGTGGAGCTGAATTTGAAGGTGCTGTTATTGCTCTCTTCCATCTGCTAATA
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s1338g00020.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------------------------------------------------------------tgtggcacatttagccacaaaccaaaca-ggccctaaatgccacatc--tcattgatta-gctattctgtatgtgcggcttacggtaaactcatgtccat--gtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
|| || || | || || || | | | | |||| | | || | ||| ||| | | | || || | ||||| || |||||||||||||| |||||||| || || || || ||||| ||||| |||||||||||||| || || ||||| | |||||||| | ||
gttagcatctggttctttttctgggattttttttaattaatttatgattttgaacatggaatatttgaagaagctttatcgtctagcagccagtgtctggtgaatggtgggcccattttctgggtgaaccattaactctactgtcaagtagtgattgctaatgaattgttttgatcaattggcagTGAAAACATCATCTGGAAGGCTTTTAGCCCCACCACTATTAATAGTGGTCGTGGAGCTGAATTTGAAGGTGCTGTTATTGCTCTCTTCCATCTGCTAATA
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: PP1S114_48V6.1 (Physcomitrella patens), 3'ss of exon 3
-tgtggcacatttagccacaaaccaaacaggccctaaatgccacatctcattgattagctattctgtatgtgcggcttacggtaaactcatgtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
| | || ||| | | | | | ||| ||| | | | ||| || || | | ||| | | | | ||||| || |||||||||||||| ||||||||||| || ||||||||||| ||||| ||||| || || || || || ||||| | ||||| || | |
cagcgcagcaattacattttatttaggtacacgtagtcctggtcctctgatttacttagtgaactg-atcaagggaatctgctaatgttgatttctcgcagTGAAAACATCATCTGGAAGGCATTTAGCCCAACTACTATCAACAGTGGTCGTGGAGCTGAGTTCGAGGGCGCTGTTATTGCTCTCTTCCACCTTCTTTTC
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ11193 (Selaginella moellendorffii), 3'ss of exon 2
tgtggcacatttagccacaaaccaaacaggccctaaatgccacatctcattgattagctattctgtatgtgcggcttacggtaaactcatgtccatg-tagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
| | | | | | | | | | || | | | || || |||||||| |||||||||||||||||||| || || |||||||||||||| ||||| ||||| || || || || ||||||| ||||||| || |||||
-------------------------------------------gtgagagaaacctttttcttttcaagctctgattttttcta--ttgtatctgtgacagTGAGAACATCATCTGGAAGGCGTTTAGTCCGACTACCATCAACAGTGGCCGTGGAGCTGAGTTCGAGGGAGCTATCATTGCTCTGTTCCACCTCTTGATC
upper sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ15673 (Selaginella moellendorffii), 3'ss of exon 2
tgtggcacatttagccacaaaccaaacaggccctaaatgccacatctcattgattagctattctgtatgtgcggcttacggtaaactcatgtccatg-tagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
| | | | | | | | | ||| | | || | || ||||||| |||||||||||||||||||| || || |||||||||||||| ||||| ||||| ||||| || || ||||||| | ||||| || |||||
-------------------------------------------gtgagagaaaccttttccttttccagctctgattatttcta--ttgtgactgtgacagTGAGACCATCATCTGGAAGGCGTTTAGTCCGACTACCATCAACAGTGGCCGTGGAGCTGAGTTTGAGGGAGCTATCATTGCTCTCTTCCACCTCTTGATCMapped 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|32807859|gb|CD960093.1|CD960093EST: GATCTGGCATCTCTCTGTTCATTGCTACGAATATCTG TGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCG
genomic: GATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatat ... gtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcattgattagctattctgtatgtgcggcttacggtaaactcatgtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
ggcttac putative branch site (score: 3)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtggcacatttagccacaaaccaaacaggccctaaatgccacatctcattgattagctattctgtatgtgcggcttacggtaaactcatgtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG