Sequence
atgc intronic sequence ATGC exonic sequencegtttgtcaatcaaactttgctagagcctcttgtatattgcaggagatgataataaggactctgagttttaacttaatttatgtttttgaatttgaattgatagGTAGGGACAATATCTGCTAACGGAGAGAGAGAAATTGGTGAGTTGATTGCAAAAGCTATGGAGAAAGTTGGCAAAGAGGGAGTAATCACAATTTCA
Basic information
species | Glycine max |
transcript | GLYMA10G25630.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g04970.1 (Oryza sativa), 3'ss of exon 5
--gtttgtcaatcaa-actttgctagagcctcttgt-atattgcaggagatgataataagga-ctctgagttttaacttaatttatgtttttga-atttgaattgatagGTAGGGACAATATCTGCTAACGGAGAGAGAGAAATTGGTGAGTTGATTGCAAAAGCTATGGAGAAAGTTGGCAAAGAGGGAGTAATCACAATTTCA
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gtaactgctgatctgcaatgagttagaaagctgtgtcatgttttttcctctcttctcagttctctctaagacactccatgctttatatattcattattctcttttatagGTTGGTACTATATCAGCTAATGGGGAAAGGGAAATTGGTGAGCTCATTGCAAAAGCTATGGAGAAGGTTGGCAAAGAGGGAGTCATCACTATTACG
upper sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 5
gtttgtcaatcaaactttgctagagcctc-ttgtatattgcaggagatgataataaggactctgagttttaacttaat-ttatgtttttgaatttgaattgatagGTAGGGACAATATCTGCTAACGGAGAGAGAGAAATTGGTGAGTTGATTGCAAAAGCTATGGAGAAAGTTGGCAAAGAGGGAGTAATCACAATTTCA
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-------------gtaatacttgtgattcattgcagatctcattatgtgtttgacttgtttcttaatcttaatctgttactaagttcttatgttcatatataaagGTGGGCACAATATCAGCAAATGGGGAAAGGGAAATTGGTGAGCTTATTGCAAAGGCTATGGAGAAGGTTGGCAAGGAGGGTGTAATCACCATTGCG
upper sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 4
gtttgtcaatcaaactttgctagagcctcttgtatattgcaggagatgataataaggactctgagttttaacttaatttatgtttttgaatttgaattgatagGTAGGGACAATATCTGCTAACGGAGAGAGAGAAATTGGTGAGTTGATTGCAAAAGCTATGGAGAAAGTTGGCAAAGAGGGAGTAATCACAATTTCA
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-------------gtatatctgcagcaccctagttactttattttgttcttatcctg--tccatccctcacctttttttattctctctatcctgtatgtaaagGTGGGTACAATATCAGCAAATGGAGAAAGGGAAATTGGTGAGCTTATTGCCAAGGCTATGGAGAAGGTTGGCAAAGAGGGTGTGATCACTATTGCG
upper sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G458208_T01 (Zea mays), 3'ss of exon 4
gtttgtcaatcaaactttgctagagcctcttgtatattgcaggagatgataataaggactctgagttttaacttaatttatgtttttgaatttgaattgatagGTAGGGACAATATCTGCTAACGGAGAGAGAGAAATTGGTGAGTTGATTGCAAAAGCTATGGAGAAAGTTGGCAAAGAGGGAGTAATCACAATTTCA
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-----------------------------gtatatctgcaaggctctagttttatgttcccttcatctt--tttaaaattctttctctatcctg---tga-agGTGGGTACAATATCAGCAAATGGGGAAAGGGAAATTGGTGAGCTTATTGCCAAGGCTATGGAGAAGGTTGGCAAAGAGGGTGTCATCACTATTGCGMapped 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|192326682|gb|FK018869.1|FK018869EST: ACTTGAAAAGCAGAGCAAGGATGATTAGCACATCTGAAGAAATAGCACAG GTAGGGACAATATCTGCTAACGGAGAGAGAGAAATTGGTGAGTTGATTGCA
genomic: ACTTGAAAAGCAGAGCAAGGATGATTAGCACATCTGAAGAAATAGCACAGgtttgtcaat ... gaattgatagGTAGGGACAATATCTGCTAACGGAGAGAGAGAAATTGGTGAGTTGATTGCA
EST:
gi|16279534|gb|BI943486.1|BI943486EST: ACTTGAAAAGCAGAGCAAGGATGATTAGCACATCTGAAGAAATAGCACAG GTAGGGACAATATCTGCTAACGGAGAGAGAGAAATTGGTGAGTTGATTGCA
genomic: ACTTGAAAAGCAGAGCAAGGATGATTAGCACATCTGAAGAAATAGCACAGgtttgtcaat ... gaattgatagGTAGGGACAATATCTGCTAACGGAGAGAGAGAAATTGGTGAGTTGATTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataataaggactctgagttttaacttaatttatgtttttgaatttgaattgatagGTAGGGACAATATCTGCTAACGGAGAGAGAGAAATTGGTGAGTTGATTGCAAAAGCTATGGAGAAAGTTGGCAAAGAGGGAGTAATCACAATTTCA
ttttaacttaatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtcaatcaaactttgctagagcctcttgtatattgcaggagatgataataaggactctgagttttaacttaatttatgtttttgaatttgaattgatagGTAGGGACAATATCTGCTAACGGAGAGAGAGAAATTGGTGAGTTGATTGCAAAAGCTATGGAGAAAGTTGGCAAAGAGGGAGTAATCACAATTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG