Sequence
atgc intronic sequence ATGC exonic sequenceTCCAAATGCTTGTGGTTGGGCATACGGGATGAACATGTTTGATCTGAAGGTGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATGgtaagcaaaggaacgaagcattggtttacatcaattgtctattctcacacaaatagaatgcaggtatggagatttttcactgacttgtttgttatgtttgattctag
Basic information
species | Glycine max |
transcript | GLYMA03G02250.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G02250.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os09g36190.1 (Oryza sativa), 5'ss of exon 8
TCCAAATGCTTGTGGTTGGGCATACGGGATGAACATGTTTGATCTGAAGGTGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATGgtaag-caaaggaacgaagcattggtttacatcaattgtctattctcacacaaatagaatgcaggtatggagatttttcactgacttgtttgttatgtttgattctag---
||||||||| ||||| ||||| || || |||||||| ||||||||||||| |||||| ||||| |||||||| || || || ||||||||||| | ||||| || | | | ||||| | |||| ||| | | || | |||||| ||| | | | | | ||| ||| ||| |||||
TCCAAATGCATGTGGCTGGGCTTATGGAATGAACATCTTTGATCTGAAGGAGTGGAAGAAGAAAGATATCACTGGGATCTACCACAAGTGGCAAAGCATGgtgagactactactttcattattggatcacattgatt-----tagagaagaaactgtaatgcaa-catg-atttagtctaacattattcttgctatttttc-ttctaacag
upper sequence: GLYMA03G02250.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os09g36180.1 (Oryza sativa), 5'ss of exon 9
TCCAAATGCTTGTGGTTGGGCATACGGGATGAACATGTTTGATCTGAAGGTGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATGgtaagcaaaggaacgaagc-attggtttacatcaattgtctattctcacacaaatagaatgcaggtatggagatttttcactgacttgtttgttatgtttgattctag
||||||||| ||||| |||||||| || |||||||| ||||||||||| | |||||| ||||| |||||||| || || || |||| |||||| || ||||| || | | ||||| | ||| ||| | ||| |||| || | || | | | ||| ||| || | | | | ||
TCCAAATGCATGTGGCTGGGCATATGGAATGAACATCTTTGATCTGAACGAGTGGAAGAAGAAAGATATCACTGGGATCTACCACAGGTGGCAAAACATGgtgagattactacttccatgattggatctcattgatttagagatgtcatgcaaaacgatt-----tactctaacatcaatgttgctttttttttttttcttctaacag
upper sequence: GLYMA03G02250.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os06g49810.1 (Oryza sativa), 5'ss of exon 8
TCCAAATGCTTGTGGTTGGGCATACGGGATGAACATGTTTGATCTGAAGGTGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATGgtaagcaaaggaacgaagcattggtttacatcaat-tgtctattctcacacaaatagaatgcaggtatggagatttttcactgacttgtttgttatgtttgattctag--
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TCCTAATGCTTGTGGCTGGGCGTATGGAATGAATATGTTTGATTTGGAAGAATGGAAGAAGAAGGACATTACTGGCATTTATCACAAATGGCAGAACATGgtaagttga--aataa------ggtttatattactgtttccatttttctgtaga--aatttcaatggcaaatttctttcgctataacatgcaatatttcagtttctgcaa
upper sequence: GLYMA03G02250.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G379577_T01 (Zea mays), 5'ss of exon 8
TCCAAATGCTTGTGGTTGGGCATACGGGATGAACATGTTTGATCTGAAGGTGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATGgtaag----caa-----aggaacgaagcat-tggtttacatcaa--------ttgtctattctcacacaaata---gaatgcag-gtatgg-agatttttcactgacttgtttgttatgtttgattctag---
||||||||| ||||| ||||| || ||||||||||| ||||||||||||| |||||| ||||| ||||| || || || || ||||| ||||| |||||||| || ||| | ||| || |||||| || ||| || ||| | || || || ||| | || | | | || | | || |||| ||||
TCCAAATGCATGTGGCTGGGCTTATGGGATGAACATCTTTGATCTGAAGGAGTGGAAGAAGAAAGATATTACTGGGATCTACCACAAATGGCAAAATATGgtgagaattcaattcttgttactgaattgcatgatttacaaaaaaaaaggttttggaaatctgtacattattatttaaactcatcatatctcacatagtcctcctgctgttctattctgttctgttctgttag
upper sequence: GLYMA03G02250.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G386971_T01 (Zea mays), 5'ss of exon 8
TCCAAATGCTTGTGGTTGGGCATACGGGATGAACATGTTTGATCTGAAGGTGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATGgtaagcaaaggaa-cgaagcattggtttacatcaattgtctattctcacacaaata-gaatgcaggtatggagatttttca---ctgacttgtttgtta---tgtttgattctag--------
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TCCAAATGCATGTGGCTGGGCTTATGGGATGAACATCTTTGATCTGAGGGAGTGGAAGAAGAAAGATATTACTGGGATCTACCACAAATGGCAAAATATGgtgaggattcaattcttgacactgaattgcatgatttacaaagaactg-acaaatatgtacattcttagttaaactcatcatatctcacatattcctcctgctgttctgttctgtccttttag
upper sequence: GLYMA03G02250.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G147145_T02 (Zea mays), 5'ss of exon 5
TCCAAATGCTTGTGGTTGGGCATACGGGATGAACATGTTTGATCTGAAGGTGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATGgtaagcaaaggaacgaagcattggtttacatcaattgtctattctcacacaaatagaatgcaggtatggagatttttcactgacttgtttgttatgtttgattctag
||| ||||| ||||||||||| || || |||||||||||||||||| | | ||||| ||||| || || || || || || ||||| |||||||| ||||| || | || | || |||| | || | || |||||| | | || | || ||| | | |
TCCTAATGCATGTGGTTGGGCTTATGGAATGAACATGTTTGATCTGGAAGAATGGAAGAAGAAAGACATTACTGGAATTTACCACAAATGGCAGAACATGgtgagttg-gaaataagattttacattacttgcatcttgacaactgctttctttagaatattgcattttgtgttcctatacaaccatcttgctgcatcttg------
upper sequence: GLYMA03G02250.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G076276_T01 (Zea mays), 5'ss of exon 7
TCCAAATGCTTGTGGTTGGGCATACGGGATGAACATGTTTGATCTGAAGGTGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATGgtaagcaaaggaacgaagcattggtttacatcaattgtctattctcacacaaatagaatgcaggtatggagatttttcactgacttgtttgttatgtttgattctag
||| ||||| ||||||||||| || || |||||||||||||||||| | | ||||| ||||| || || || || || || ||||| |||||||| ||||| | | |||| || |||| ||| | | | |||| |||| | | | | || || | || | || ||
TCCTAATGCATGTGGTTGGGCTTATGGAATGAACATGTTTGATCTGGAAGAATGGAAGAAGAAAGACATTACTGGAATCTACCACAAATGGCAGAACATGgtgaattggaagattttacatta-cttgcatc--ttgacaccttttcttttaatat--tgca--tttaattttcctatacgtacacagccatcttgctgatttatat
upper sequence: GLYMA03G02250.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv15s0048g01300.t01 (Vitis vinifera), 5'ss of exon 9
TCCAAATGCTTGTGGTTGGGCATACGGGATGAACATGTTTGATCTGAAGGTGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATGgtaagcaaaggaacgaagcattggtttacatcaattgtctattctcacacaaatagaatgcaggtatggagatttttcactgacttgtttgttatgtttgattctag
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TCCAAATGCTTGTGGGTGGGCATATGGAATGAACATTTTTGATCTCAAGGAGTGGACAAGAAGGGATATTACTGGCATATATCATAAGTGGCAGAACATGgtgagtctttgaataaatc-tcgttttatttgcatgctttgtgtttttttcttttacaaacaatttttt--ttcatgcatgtgaatgtttatgttatttgacc----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|8827860|gb|BE211590.1|BE211590EST: TGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATG AATGAAGACAGGGTGCTGTGGAAGCTGGGGACGTTACCTCCGGGGCTAATA
genomic: TGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATGgtaagcaaag ... ttgattctagAATGAAGACAGGGTGCTGTGGAAGCTGGGGACGTTACCTCCGGGGCTAATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCAAATGCTTGTGGTTGGGCATACGGGATGAACATGTTTGATCTGAAGGTGTGGAAAAAGAAGGATATCACCGGCATATATCACAAGTGGCAGAATATGgtaagcaaaggaacgaagcattggtttacatcaattgtctattctcacacaaatagaatgcaggtatggagatttttcactgacttgtttgttatgtttgattctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG