Sequence
atgc intronic sequence ATGC exonic sequenceACAGCCAACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTGtaagttctctaactgataagtgttttatgttatgttattcaatatatccagttagagtctattatattcagccaatattctctatattcttttcttcatatttgtcataaatatttatatttattcctttatatttgttcccattcagtatattcatgaatttatttggtgtcgtccagg
Basic information
species | Glycine max |
transcript | GLYMA18G44630.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G44630.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g60700.1 (Oryza sativa), 5'ss of exon 4
-ACAGCCAACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTGtaagttctctaactgataagtgttttatgttatgttattcaatatatccagttagagtctattatattcagccaata---ttctctatattcttttcttcatatttgtcataaatatttatatttattcctttatatttgttcccattcagtatattcatgaatttatttggtgtcgtccagg
|| | ||||| || |||||||||||||||| |||||||| ||||||||||| ||||||||| | | |||| || || || |||| || ||||||| | | | || | ||||| || | || | |||| | | ||| | || |||| || |||| | | |||| |||
AACCTCAAACATCCAAATTGACAAAGATTTCACTGCAAAGCTATCAGGATATGGATGTGTTGGATTCAATACCGAGGAGGAAATATCAAATGCATCTGTGgtaagttatgt--tttgaaaatattttagaagatatagtt-----------atcagagcccaactcatttgcctgatctctttctgtaaattcaagtagtgtgttttggcatg-----------------------------------------------------------------------
upper sequence: GLYMA18G44630.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G068151_T01 (Zea mays), 5'ss of exon 4
----ACAGCCAACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTGtaagttctctaactgata-agtgttttatgttatgttattcaatatatccagt-tagagtctattatattcagccaatattctctatattcttttcttcatatttgtcataaatatttatatttattcctttatatttgttcccattcagtatattcatgaatttatttggtgtcgtccagg
|| ||||| || || || |||| ||||| || |||||||||||||||||||||||||| | | |||| || || || | | ||| || ||| ||||| | | | | | | ||||||| | || | | | | || | || | | | | | | | ||| | | | |
CTCAACTTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGA-GATATCTAATGCACCTG--TGgtatgttcttatatgagtgcaatttagaagtttatgttgtccagcacaacttatgcctcgtttcttttcatggttccagacttccaatagtatagtagta-----------------------------------------------------------------------------------
upper sequence: GLYMA18G44630.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G871928_T01 (Zea mays), 5'ss of exon 2
----ACAGCCAACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTGtaagttctctaactgata-agtgttttatgttatgttattcaatata--tccagttagagtctattatattcagccaatattctctatattcttttcttcatatttgtcataaatatttatatttattcctttatatttgttcccattcagtatattcatgaatttatttggtgtcgtccagg
|| ||||| || || || |||| ||||| || |||||||||||||||||||||||||| | | |||| || || || | | ||| || ||| ||||| | | | | | | ||||||| | || | | | | | || ||| || | | | | | | | | | ||
CTCAACTTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGA-GATATCTAATGCACCTA--TGgtatgttcttgtatgagtgcaatttagaagtttatgttgtccagcacaacttatgcctcgtttcttttcattggtcccaaacttccaaaagtatagtatt------------------------------------------------------------------------------------
upper sequence: GLYMA18G44630.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G380227_T01 (Zea mays), 5'ss of exon 3
--ACAGCC--AACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTGtaagttctctaactgata-agtgttttatgttatgttattcaatata--tccagttagagtctattatattcagccaatattctctatattcttttcttcatatttgtcataaatatttatatttattcctttatatttgttcccattcagtatattcatgaatttatttggtgtcgtccagg
|| | ||||| || || || |||| ||||| || |||||||||||||||||||||||||| | | |||| || || || | | ||| || ||| ||||| | | | | | | ||||||| | || | | | | | || ||| | | | | | | | | | | ||
TCTCAACTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGA-GATATCTAATGCACCTG--TGgtatgttcttgtatgagtgcaatttagaagtttatgttgtccagcacaacttatgcctcgtttcttttcattggttccaaacttccaaaagtatagtatt------------------------------------------------------------------------------------
upper sequence: GLYMA18G44630.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G828466_T01 (Zea mays), 5'ss of exon 2
----ACAGCCAACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTGtaagttctctaactgata-agtgttttatgttatgttattcaatata--tccagttagagtctattatattcagccaatattctctatattcttttcttcatatttgtcataaatatttatatttattcctttatatttgttcccattcagtatattcatgaatttatttggtgtcgtccagg
|| ||||| || || || |||| ||||| || |||||||||||||||||||||||||| | | |||| || || || | | ||| || ||| ||||| | | | | | | ||||||| | || | | | | | || ||| | | | | | | | | | | ||
CTCAACTTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGA-GATATCTAATGCACCTA--TGgtatgttcttgtatgagtgcaatttagaagtttatgttgtccagcacaacttatgcctcgtttcttttcattggttccaaacttccaaaagtatagtatt------------------------------------------------------------------------------------
upper sequence: GLYMA18G44630.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G143790_T01 (Zea mays), 5'ss of exon 2
----ACAGCCAACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTGtaagttctctaactgata-agtgttttatgttatgttattcaatata--tccagttagagtctattatattcagccaatattctctatattcttttcttcatatttgtcataaatatttatatttattcctttatatttgttcccattcagtatattcatgaatttatttggtgtcgtccagg
|| ||||| || || || |||| ||||| || |||||||||||||||||||||||||| | | |||| || || || | | ||| || ||| ||||| | | | | | | ||||||| | || | | | | | || ||| | | | | | | | | | | ||
CTCAACTTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGA-GATATCTAATGCACCTG--TGgtatgttcttgtatgagtgcaatttagaagtttatgttgtccagcacaacttatgcctcgtttcttttcattggttccaaacttccaaaagtatagtatt------------------------------------------------------------------------------------
upper sequence: GLYMA18G44630.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G079117_T01 (Zea mays), 5'ss of exon 2
----ACAGCCAACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTG-
|| ||||| || || || |||| ||||| || |||||||||||||||||||||||||| | | |||| || || || | | ||| ||| || || ||||| | | | | | | ||||||| | || | | | | | || ||| | | | | | | | | | | ||
CTCAACTTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGA-GATATCTAATGCA---CATGTGgtatgttcttgtatgagtgcaatttagaagtttatgttgtccagcacaacttatgcctcgtttcttttcattggttccaaacttccaaaagtatagtatt------------------------------------------------------------------------------------
upper sequence: GLYMA18G44630.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0058g01290.t01 (Vitis vinifera), 5'ss of exon 4
-ACAGCCAACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTGtaagttctctaactgataagtgttttatgttatgttattcaatatatccagttagagtctattatattcagccaatattctc-tatattcttttcttcatatttgtcataaatatttatatttattcctttatatttgttcccattcagtatattcatgaatttatttggtgtcgtccagg
|| ||||| |||||||||||||| ||||| || ||||||||||| ||||||||||| ||||| || ||||| |||| ||| ||| || || ||| ||||||| || ||||| ||| | | | || ||| | | | ||| | || || || | || | | | | |||
AACTGCCAATATACAGATTGACAAGGATTTTAGTGCAAAGCTTTCGGGATATGGTTGCGTTGGCCACATTCCAGAAGCAGATGTTTGCAGTAGTTCAGTTgtaagtgctttaactcatatgaggataattctatcattgttttggtttccgactgcgagatactacttttcccatgcatagagatggaatagtacaatca----------------------------------------------------------------------------------Mapped 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|9986583|gb|BE660691.1|BE660691EST: TGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTG CTGTTGGAAACCTATCAATGGAAACACTGGAGAAAGGAATGCTCACTCCAA
genomic: TGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTGtaagttctct ... gtcgtccaggCTGTTGGAAACCTATCAATGGAAACACTGGAGAAAGGAATGCTCACTCCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACAGCCAACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGAGATTTCAAGCAGCTCATCTGtaagttctctaactgataagtgttttatgttatgttattcaatatatccagttagagtctattatattcagccaatattctctatattcttttcttcatatttgtcataaatatttatatttattcctttatatttgttcccattcagtatattcatgaatttatttggtgtcgtccagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA