Sequence
atgc intronic sequence ATGC exonic sequence...tgagtctaagaagactcaaacaagcccattactgtctacagttttctgtatgcatttgtgtttttgtgcaattatgctcatgtaaccatgttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 5
-----------------------------------tgagtctaagaagactcaaacaagcccattactgtctacagttttctgtatgcattt-gtgtttttgtgc----------aattatgctcatgta-accatgttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
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gtacatgaagtcatgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgct--tgaagacacttttctttgtatatttcatgatttcttacttagaagaccactgaagctcttatacaacatgatt-ttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA
upper sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 5
---------------------------------------------tgagtctaagaaga----ctcaaacaagcccattactgtctacagtt-----ttctgtatgcatttgtgtttttgtgcaattatgctcatgta-accatgttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
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gtacttgaagacgtgaaccttttttggtccatttgtttgtatatctacctcttgatgcatttgcttgaagacacacttttctttgtatatttcatgatttcttacttagaagatcactggagctcttatacaagtatacaacatgatt-ttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATCCGTGTATATAATTACAACACAATGGATAAAGTCAA
upper sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
------tgagtctaagaagactcaaacaagcccattactgt----ctacagttttctgtatgca--tttgtgtttttgtgcaattatgctcatgtaaccatgttaatt-gcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
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gtataacaagtttatgagca-tcttctgatttcattgttatagatttttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
upper sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 9
tgagtctaagaagactcaaacaagcccattactgtctacagttttctgtatgcatttgtgtttttgtgcaattatgctcatgtaaccatgttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
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--------gtatgatatatagcatctcattgttccttcttattcttt---cgcacat---catttgttgaatctctgtcctg-----gtgttg--tgcagTTCGGTCAGCAAAGTTCATTGCACGGAAGCAGTGGGTTGTAGCTGGAGCTGATGACATGTTTATTCGTGTCTACAACTACAACACTATGGATAAGATCAA
upper sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 5
------------------tgagtctaagaagactcaaacaagcccatt---actgtctacagttttctgtatgcatttgtgtttttgt--gcaattatgct-catgtaaccatgtta-------attgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
| || | | ||| | | | | | || | | | || || || | || | | || | | ||||| | || ||| ||||||||| | || || || ||||| |||| |||||||||||||||||||| || ||||| ||||| || ||||| || || ||||| || ||||||||||| ||
gtatgtacatgtactttatctgtttccatatgctctatttggtgtgattgaattcccttgatccatttttactcaatttctctcttattggtaaggttattacatgtttcaattttacattatcattgcagTTAGGTCAGCGAAGTTTATAGCACGCAAGCAATGGGTTGTTGCTGGAGCTGATGATATGTTTATTCGTGTATACAATTATAACACAATGGATAAGGTTAA
upper sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 5
tgagtctaagaagactcaaacaagcccattactgtctacagttttctgtatgcatttgtgtttttgtgcaattatgctcatgtaaccatgttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
| | ||| ||| | | ||| | ||| |||| || | ||| || ||| || ||| | | | | | ||||||| || || || |||||||| || | ||||| ||||| |||||||| || ||||||||||| |||||||| || || || ||||| ||||||||||| |
------gtatgttattcatacatgacttttaatttctccagtcttg-gcatg-----gtaattt----catttacatctaaggcatc----tgcttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC
upper sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
lower sequence: PP1S79_180V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------------------------------------------------------------tgagtctaagaagactcaa-----acaa-gcccattactgtctacagtt-ttctgtat---gcatttgtgtttt-----tgtgcaattatgctcatgtaaccatgttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
|||| | | | | || ||| || || |||| | || | |||| ||| | | | || || | | |||| | |||| |||||| || || || || ||||| | | ||||| |||||||| ||| | | ||||||||||||||||| |||||||||||||| || ||||| || || ||
gtacgttgtttgagaccatgtttatccgtccgttccatggttcagctgtcattgtagtagtcactcgcgagttttattacagtcgtcactcacagtgcatctttctgtgtttagctgttctctattttgaaaccatcacttgaaagtgctgagaggagttcatctcgttctgttttctgcagTGCGATCAGCGAAGTTTATCCCCCGTAAGCAGTGGGTTGTGGCTTGCTCTGATGACATGTTCATCCGAGTGTATAACTATAACACGATGGACAAAGTGAA
upper sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
lower sequence: EFJ09529 (Selaginella moellendorffii), 3'ss of exon 2
--------------tgagtctaagaagactcaaacaagcccattact--gtctacagttttctgtatgcatttgt----gtttttgtgcaattatgctcatgtaaccatgttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
|| | ||| | | || || | |||| | || | | |||| | |||| | | || | | ||| | | | || ||| ||| || ||||| || || || | | ||||| ||| | || ||||||||||| ||||||| ||| || || || ||||| ||||||||||| ||||||||
gtaacttttggagtggatttctctaagtccctcgagagtatttttccaagtctgtgttgctccatctcgatttttctaagtttctctctaa--accattgtgtgatc-tcttgcttgtagTCCGCTCGGCCAAGTTCATATCGCGAAAGCAGTGGATAGTCGCTGGTGCCGACGACATGTACATTCGAGTCTACAACTACAATACCATGGACAAGGTCAA
upper sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
lower sequence: EFJ36319 (Selaginella moellendorffii), 3'ss of exon 2
-tgagtctaaga--agactcaaacaagcccattac-----tgtctacagttttctgta--tgcatttgtgtttttgtgcaattatgctcatgtaaccatgt-------taattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
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gtaacttttggagtaaatttctctaagtcccttgagagtatttttccaagtctgtgttgctccatctcgatttttctaagtttctctctaaaaaattgtgtgatctcttgcttgtagTCCGCTCGGCCAAGTTCATATCGCGAAAGCAGTGGATAGTCGCTGGTGCCGACGACATGTACATTCGAGTCTACAACTACAATACCATGGACAAGGTCAAMapped 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|71449170|gb|DR830220.1|DR830220EST: ACAATGGTGAAATCTTTTGAAGTCAGTGAGTTACCAG TTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCG
genomic: ACAATGGTGAAATCTTTTGAAGTCAGTGAGTTACCAGgtttctttct ... ttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtatgcatttgtgtttttgtgcaattatgctcatgtaaccatgttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
tgttaat putative branch site (score: 3)
atgttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgagtctaagaagactcaaacaagcccattactgtctacagttttctgtatgcatttgtgtttttgtgcaattatgctcatgtaaccatgttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA