Sequence
atgc intronic sequence ATGC exonic sequence...gtcccaaaaaattatttctctatccaattaagtcagaacactgggtattatttcattgcatttttctgtttaaacaaaaaatgttgcttatttattgtagGTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAG
Basic information
species | Glycine max |
transcript | GLYMA18G03270.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G03270.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g61120.1 (Oryza sativa), 3'ss of exon 9
------------------------------------------------------------------------------------------gtcccaaaaaattatttctc----tatccaattaagtcagaacactgggtattatttcattgcatttttct-gtttaaacaaaaaatgttgcttatttattgtagGTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAG
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gtaagtctacctgtatgatatacagctttgacaatatccaatatccttggacaatcaagtattgtttgtgtacagttgttggagtaactagtagctaggaaccatccttcttactgtcatatctactaagattcgtcatggctgtgttattacttattaatagttctcacaaggtctgtttctgcatttctgtagGTTACTGGAGAGTTGCGTGATGATCTGACTTGTTGGGATGCTCTTCGAGCAGCATTGCCCGTTGGAACAGTTAGTGGTGCACCAAAG
upper sequence: GLYMA18G03270.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g15780.4 (Oryza sativa), 3'ss of exon 9
gtcccaaaaaattatttctctatccaattaagtcagaacactgggtattatttcattgcatttttctgtttaaacaaaaaatgttgctt--atttattgtagGTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAG
| | || | | | | || | | | ||| || || | || | ||| | || | ||| || || || |||| | |||||||||| | || ||| | || ||||||||||||||||| || ||||| |||||||| || |||||||||||||||
--tgtagtgctcttttacgtaagtgtgctggctgagcgcctttgagattcttgtcttctgtacttacactgaaaaacaatgtattgtttgaatgatttacagGTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCCGCGTTGCCTGTTGGAACAGTTAGTGGAGCACCAAAG
upper sequence: GLYMA18G03270.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G161337_T03 (Zea mays), 3'ss of exon 1
gtcccaaaaaattatttctctatccaattaagtcagaacactgggtatt--atttcattgcatttttctgtttaaac-aaaaaatgttgcttatttattgtagGTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAG
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---gatggattttgattattagtgtacatggtagaagattctaggctttggaaaatattgcaatgtcatgcaaaaattgtaacatcgggttgaatgtttgcagGTTAGTGGACAGTTGGATGATCATCTCCAGAGTTGGGATGCCTTGAGAGCTGCCTTGCCCGTTGGAACAGTCAGTGGTGCACCAAAG
upper sequence: GLYMA18G03270.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G003109_T01 (Zea mays), 3'ss of exon 9
gtcccaaaaaattatttctctatccaattaagtcagaacactgggtattattt-cattgcatttttctgtttaaacaaaaaatgt-tgctt-----atttattgtagGTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAG
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------taacacaattatgtagtatgaacaagttagca-gctttttatgatttgtagtatcaacaattatttataagaaacatgcgtattttaaaaaacttgtgcagGTCACCGGTGAGCTACGTGATGATCTTACGTGCTGGGATGCGCTACGAGCTGCATTGCCAGTTGGAACAGTTAGTGGAGCTCCAAAG
upper sequence: GLYMA18G03270.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G55870.1 (Arabidopsis thaliana), 3'ss of exon 9
-----------gtcccaaaaaattatttctctatccaattaagt-cagaacactgggtattatttcattgcatttttct-----gtttaaacaaaaaatgttgcttattt---attgt------agGTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAG
| | |||| | ||| || | | | | | | | ||| | ||| | |||| | ||||| ||| | | | || ||||| |||| | |||||||||||||||| || ||||| ||||||| | || || ||||| || ||||||||||| || || ||||| ||||||
gtaatacaatattttcttaaaacattgcgatcatcaaactcatttctcatctcaaagtacttccacatagtgttttcactcggaatgtaaacgcaaactctcatcaactttgaattgtgtaaatagGTGATTGGAGAGTTGCAAGAGAATCTGACTTGCTGGGACACGCTTCGTGCTGCTTTACCCGTTGGAACCGTTAGCGGAGCTCCAAAG
upper sequence: GLYMA18G03270.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0067g00400.t01 (Vitis vinifera), 3'ss of exon 9
------gtcccaaaaaattatttctctatccaattaagtcagaacactgggtattatttcattgcatttttctgtttaaacaaaaaatgttgcttatttattgtagGTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAG
|| ||| ||| ||| | | |||| | || ||| | | | || |||| | |||||| |||| || ||||||| || ||||||||||| ||| | ||||||||| |||||||||| | | ||| |||||| | || |||||||||||||||
cattttgttccatgtgatttccaatcttacaagagtcaggagaaaattga-tataaacaataagtaaccttttgtt-----acaaaatggatgccattttttccagGTTACAGGGGAGTTGCAAGATCATCTCACTAGCTGGAATGCCCTGCGCAGTATACTGCATGTTGGAGCAGTTAGTGGAGCACCAAAGMapped 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|193338190|gb|FK304293.1|FK304293EST: AGCTTATGAATGTTGAACGATATTCCCATGTCATGCACATAAGTTCAACG GTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCT
genomic: AGCTTATGAATGTTGAACGATATTCCCATGTCATGCACATAAGTTCAACGgtgagaatat ... tttattgtagGTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattatttcattgcatttttctgtttaaacaaaaaatgttgcttatttattgtagGTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAG
cttattt CT-rich tract
tttaaacaaaaaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcccaaaaaattatttctctatccaattaagtcagaacactgggtattatttcattgcatttttctgtttaaacaaaaaatgttgcttatttattgtagGTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- cccaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - -cattgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgct