Sequence
atgc intronic sequence ATGC exonic sequence...acacattttacccataaaatcatcaccaaaacttaagtttctcacctaattgagagtattttaattttaacactatattccttcacaattgctctttcagATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCTGTTCTTGATGTTGGCTGTGGGGTTGCTAGCTTTGGAGGATACCTCCTTT
Basic information
species | Glycine max |
transcript | GLYMA03G32130.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G32130.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g33720.1 (Oryza sativa), 3'ss of exon 4
----------------acacattttacccataaaatcatcaccaaaacttaagtttctcacctaa---ttgagagtattttaattttaacactatattccttcacaattgctcttt--cagATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCTGTTCTTGATGTTGGCTGTGGGGTTGCTAGCTTTGGAGGATACCTCCTTT
| ||| ||| |||| || | | |||| | | | | | ||| ||| | | || || || | | | | | | || | || | | |||||||| || || | | |||||||| ||||||| ||||| | | | |||||||||||||| ||||| |||||||| ||||||||||| || ||||
gtaagtttgttctttagaatctttcaccaataatttcttatcacaaacatga--tacatatttaaatgttgggctttttcaaacttcattattgtgattcatcttttctactatctggcagATGCTAAAGTTCAAAGATAACAATATTAACAATGAGGGAATGCTTCGTACAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTTGGAGGATATCTTCTTT
upper sequence: GLYMA03G32130.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G575696_T01 (Zea mays), 3'ss of exon 2
acacattttacccataaaatcatcaccaaaacttaagtttctcacctaattgagagtattttaattttaacactatatt-ccttcacaattgctctttcagATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCTGTTCTTGATGTTGGCTGTGGGGTTGCTAGCTTTGGAGGATACCTCCTTT
|| ||| || | | || ||| ||| | | | ||| | || || | | | | | ||||| || ||||| | | |||||||||||||||| ||| | | | |||||||||||||| ||||| |||||||| || ||||||||||| ||||
-------------------------gtaagccttttgtct-tgactcctttgtaagtttcccagaaattcttttatctgaccatctctactatt-tgccagATTCTAAATTTCAAAGATAACAATATAAACAATGAGGGGATGCTTCGTATAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTCGGAGGATACCTTCTTT
upper sequence: GLYMA03G32130.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G433989_T01 (Zea mays), 3'ss of exon 1
acacattttacccataaaatcatcaccaaaacttaagtttctcacctaattgagagtattttaattttaacactatattccttcacaattgctctttcagATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCTGTTCTTGATGTTGGCTGTGGGGTTGCTAGCTTTGGAGGATACCTCCTTT
||| | | ||| ||| | | | | | ||| || | | || || || ||| | |||||||| ||||| | | |||||||||||||||| ||| | | | |||||||||||||| ||||| |||||||| || ||||||||||| ||||
-------------gtaagccttttgtcttgactcc--tttgtaagtttccctgaaattcttttatctgaccat-------ctctactatt----tgccagATGCTAAATTTCAAAGATAACAATATAAACAATGAGGGGATGCTTCATACAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTCGGAGGATACCTTCTTT
upper sequence: GLYMA03G32130.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G067764_T02 (Zea mays), 3'ss of exon 4
acacattttacccataaaatcatcaccaaaacttaagtttctcacctaattgagagtatttt-aattttaacactatattccttcacaattgctctttcagATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCTGTTCTTGATGTTGGCTGTGGGGTTGCTAGCTTTGGAGGATACCTCCTTT
|| ||| || | || | | | | || || | | || || || | | || | | |||||||| ||||| | |||||||||||||||| || | | | | |||||||||||||| ||||| |||||||| ||||||||||| || ||||
-------------------------gtaagccttttgtcttgattcttttgtaagttgccctgaaattctttaatctaacccatctctactgtt-tggcagATGCTAAATTTCAAGGATAACAATATAAACAATGATGGGATGCTTCGTACAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTTGGAGGATATCTTCTTT
upper sequence: GLYMA03G32130.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G107629_T03 (Zea mays), 3'ss of exon 5
acacattttacccataaaatcatcaccaaaacttaagtttctcacctaattgagagtattttaattttaacactatattccttcacaattgctcttt--cagATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCTGTTCTTGATGTTGGCTGTGGGGTTGCTAGCTTTGGAGGATACCTCCTTT
|| ||| || | | || ||| ||| | | | | ||| || | || ||| |||||||| ||||| | | |||||||||||||||| ||| | | | | |||||||||||||| ||||| |||||||| || ||||||||||| ||||
-------------------------gtaagccttttgtct-tgactcctttgtaagtttccc--tgaaattcttttatctgaccatctctactatttggcagATGCTAAATTTCAAAGATAACAATATAAACAATGAGGGGATGCTTCGTACAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTCGGAGGATACCTTCTTT
upper sequence: GLYMA03G32130.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G23300.1 (Arabidopsis thaliana), 3'ss of exon 4
acacattttacccataaaatcatcaccaaaacttaagtttctcacctaattgagagtattttaattttaacactatattccttcacaattgctctttcagATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCTGTTCTTGATGTTGGCTGTGGGGTTGCTAGCTTTGGAGGATACCTCCTTT
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-------------gtaaggcagttactagatcttatgtggaatagaggtgtgtgtccatcttcattt-actgatactattcatggaaattgc------agATGCTTAATTTTCCGAACAATGTTTTGAACAATGGGGGAAGGCTGAGGACATTTCTTGATGTTGGCTGTGGTGTTGCTAGCTTTGGAGGTTATCTTCTTGMapped 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|192328532|gb|FK020764.1|FK020764EST: GAACCCACTTCCATAATGGTGCTGATAAATACATTGCTTCAATTGCTAAT ATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCT
genomic: GAACCCACTTCCATAATGGTGCTGATAAATACATTGCTTCAATTGCTAATgtaatgcttc ... gctctttcagATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaattgagagtattttaattttaacactatattccttcacaattgctctttcagATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCTGTTCTTGATGTTGGCTGTGGGGTTGCTAGCTTTGGAGGATACCTCCTTT
ttttaac putative branch site (score: 2)
ttgctctttc putative PPT
agagtattttaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acacattttacccataaaatcatcaccaaaacttaagtttctcacctaattgagagtattttaattttaacactatattccttcacaattgctctttcagATGCTTAATTTTCCAAACAACAATATAAACAATGGGGGAAGAGTCAGGTCTGTTCTTGATGTTGGCTGTGGGGTTGCTAGCTTTGGAGGATACCTCCTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT