Sequence
atgc intronic sequence ATGC exonic sequence...cttacctaaacatcctagcctgctttaatttttgaaaaaaatgaaatatgctttaaggattaatttatgatgatactaacttaacagaggcgtaatgcagATGGTTAGGATGTTAGATATACTGGGAGAGTATATGTCACTTCGAGGGTTTCAATTTCAGAGGCTTGATGGCAGTACAAAAGCTGAGCTTCGACAACAAG
Basic information
species | Glycine max |
transcript | GLYMA02G45000.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os07g46590.1 (Oryza sativa), 3'ss of exon 7
cttacctaaacatcctagcc------tgctttaatttttgaaaaaaatgaaatatgctttaaggattaatttatgatgatactaacttaacagaggcgtaatgcagATGGTTAGGATGTTAGATATACTGGGAGAGTATATGTCACTTCGAGGGTTTCAATTTCAGAGGCTTGATGGCAGTACAAAAGCTGAGCTTCGACAACAAG
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-caacatcaatatatcggacaacgaatatattatatgtcgcttgaaagcatttgcaccttaga---taacttatataagtgctttctgaatcaaattgt--tgcagATGGTTAGGATGTTGGACATCCTTGCTGAGTATCTATCCCTCCGAGGATTCCAGTTTCAGAGGCTTGATGGCAGTACGAGAGCAGATCTTCGTCACCAGG
upper sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G010342_T01 (Zea mays), 3'ss of exon 17
--cttacctaaacatcctagcctgctttaatttttgaaaaaaatgaaatatgctttaagg-attaatttatgatgatactaacttaacagaggcgtaatgcagATGGTTAGGATGTTAGATATACTGGGAGAGTATATGTCACTTCGAGGGTTTCAATTTCAGAGGCTTGATGGCAGTACAAAAGCTGAGCTTCGACAACAAG
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taggagttaaaacattacagtgctcacatgatatttctgaaagcaaaatattttttaaggtatctgcgcctaatgtggattact-acttgacacct--tgcagATGGTTAAGATGTTGGACATCCTTGCAGAATATCTCTCCCTTCGGGGATTTCAGTTTCAGAGGCTTGATGGTAGTACAAGAGCAGATCTTCGTCATCAAG
upper sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G141258_T01 (Zea mays), 3'ss of exon 21
cttacctaaacatcctagcctgctttaatt--tttgaaaaaaatgaaa-tatgctttaagg-attaatttatgatgatactaacttaacagaggcgtaatgcagATGGTTAGGATGTTAGATATACTGGGAGAGTATATGTCACTTCGAGGGTTTCAATTTCAGAGGCTTGATGGCAGTACAAAAGCTGAGCTTCGACAACAAG
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catacctattt-tcttattgtgctatcatcaatatgttggaaagaaaactattttttaaagcatctgcgcctcaggtggtttacttcat---gattccttgcagATGGTTAAGATGTTGGACATCCTTGCAGAATACCTCTCTCTTCGGGGATTTCAGTTTCAGAGGCTTGATGGTAGTACAAGAGCAGATCTTCGTCATCAAG
upper sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 18
cttacctaaacatcc-tagcctgctttaatttttgaaaaaaatgaaatatgctttaaggattaatttatgatga-tactaacttaacagaggcgta--atgcagATGGTTAGGATGTTAGATATACTGGGAGAGTATATGTCACTTCGAGGGTTTCAATTTCAGAGGCTTGATGGCAGTACAAAAGCTGAGCTTCGACAACAAG
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--agattagtcgtctattgatcaaaattatgtcttaacaaact--atctttatttagggatacaattgtactggctatttaagtgacaagattgttttatgcagATGGTTAGAATGTTGGATATACTGGCAGAATATATGTCACTTAGAGGGTTCCAATTTCAGCGGCTTGATGGTAGTACAAAGGCTGAGTTGCGTCAGCAGGMapped 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|207779879|gb|GD753900.1|GD753900EST: TGCTTGTTAAATTGCATGAAACCAAGCATCGTGTTCTGATTTTCTCTCAG ATGGTTAGGATGTTAGATATACTGGGAGAGTATATGTCACTTCGAGGGTTT
genomic: TGCTTGTTAAATTGCATGAAACCAAGCATCGTGTTCTGATTTTCTCTCAGgtttgttgtt ... cgtaatgcagATGGTTAGGATGTTAGATATACTGGGAGAGTATATGTCACTTCGAGGGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgctttaaggattaatttatgatgatactaacttaacagaggcgtaatgcagATGGTTAGGATGTTAGATATACTGGGAGAGTATATGTCACTTCGAGGGTTTCAATTTCAGAGGCTTGATGGCAGTACAAAAGCTGAGCTTCGACAACAAG
attaatttatgatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttacctaaacatcctagcctgctttaatttttgaaaaaaatgaaatatgctttaaggattaatttatgatgatactaacttaacagaggcgtaatgcagATGGTTAGGATGTTAGATATACTGGGAGAGTATATGTCACTTCGAGGGTTTCAATTTCAGAGGCTTGATGGCAGTACAAAAGCTGAGCTTCGACAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - -ctaaaca
- - - - - - - - agcctgc
- - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - tatgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgat