Sequence
atgc intronic sequence ATGC exonic sequenceGGGATCCTACACTTGCTGTTGTTGCTTACCGAAGGGGGCAATGTGATGATGAGCTTGTTAATGTTTCCAATAAAAATTCCTTGTTCAAACTCCAAGCCAGgtgtgtgtactatccttcattaaggtgtcattgtatttcatcatgttagtttgggacactcatgctatttctttttgtttgtatcag
Basic information
species | Glycine max |
transcript | GLYMA02G39360.1 |
intron # | 23 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 23
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 23
GGGATCCTACACTTGCTGTTGTTGCTTACCGAAGGGGGCAATGTGATGATGAGCTTGTTAATGTTTCCAATAAAAATTCCTTGTTCAAACTCCAAGCCAGgtgtgtgtactatccttcattaaggtgtcattgtatttcatcatgttag---tttgggacactcatgctatttctttttgtttgtatcag-------------
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GGGATCCTACCCTTGCTGTTGTTGCTTACAGACGTGGACAGTGTGATGATGAACTTATTAATGTCACCAATAAAAACTCACTGTTCAAGCTGCAAGCTAGgtatgcaaattgtttttattcttcataccttttaattttatttcttctgaatctttaaatccatctattgattgcttacatagaaatcgatttgaattgccag
upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 23
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 23
GGGATCCTACACTTGCTGTTGTTGCTTACCGAAGGGGGCAATGTGATGATGAGCTTGTTAATGTTTCCAATAAAAATTCCTTGTTCAAACTCCAAGCCAGgtgtgtgtactatccttcattaaggtgtcattgtatttcatcatgttagtttgggacactcat--gctatttctttttgtttgtatcag-------------
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GGGATCCTACCCTTGCTGTTGTTGCTTACAGACGTGGACAGTGTGATGATGAACTTATTAATGTCACCAATAAAAACTCACTGTTCAAGCTGCAAGCTAGgtatgcaaattgtttttattcttcatacttttaattttatttcttctgaatctttaaatccatcgattgattgcttacatagaaatcgatttgaattgccag
upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 23
lower sequence: GRMZM2G057576_T02 (Zea mays), 5'ss of exon 21
GGGATCCTACACTTGCTGTTGTTGCTTACCGAAGGGGGCAATGTGATGATGAGCTTGTTAATGTTTCCAATAAAAATTCCTTGTTCAAACTCCAAGCCAGgtgtgtgtactatccttcattaaggtgtcattgtatttcatc-atgttagtttgggacac-tcatgctatttctt-tttgtttgtatcag------------------
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GAGATCCTACACTTGCTGTTGTTGCTTATAGACGTGGGCAATGTGACGACGAGCTTATTAATGTCACTAACAAAAACTCATTGTTCAAGCTACAAGCTAGgtatata-attatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaatttcag
upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 23
lower sequence: GRMZM2G111355_T01 (Zea mays), 5'ss of exon 3
GGGATCCTACACTTGCTGTTGTTGCTTACCGAAGGGGGCAATGTGATGATGAGCTTGTTAATGTTTCCAATAAAAATTCCTTGTTCAAACTCCAAGCCAGgtgtgtg-tactatccttcattaagg--tgtcat-tgtatttca------tcatgttagtt-tgggac-actcatgctatttctttttgtttgtatcag-------
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GGGATCCTACACTTGCTGTTGTTGCTTACAGACGTGGGCAGTGTGACTATGAACTTATTAACGTCACTAACAAGAATTCGTTATTCAAGCTGCAAGCTAGgtatgtaataatttttattgttgtgacttgtgacacctgtttcaagatgtccacatcaattgtctgacgacttacatgttcatattgcatttatttaaaatgacag
upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 23
lower sequence: GRMZM2G325285_T01 (Zea mays), 5'ss of exon 12
GGGATCCTACACTTGCTGTTGTTGCTTACCGAAGGGGGCAATGTGATGATGAGCTTGTTAATGTTTCCAATAAAAATTCCTTGTTCAAACTCCAAGCCAGgtgtgtg-tactatccttcattaagg--tgtcat-tgtatttca------tcatgttagtt-tgggac-actcatgctatttctttttgtttgtatcag-------
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--GATCCTACACTTGCTGTTGTTGCTTATAGACGTGGGCAGTGTGACGATGAACTTATTAACGTCACTAACAAGAATTCGTTATTCAAGCTGCAAGCTAGgtatgtaataatttttattgttgtgacttgtgacacctgtttcaagatgtccacatcaattgtctgacgacttacatgttcatattgcatttatttaaaatgacag
upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 23
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 23
GGGATCCTACACTTGCTGTTGTTGCTTACCGAAGGGGGCAATGTGATGATGAGCTTGTTAATGTTTCCAATAAAAATTCCTTGTTCAAACTCCAAGCCAGgtgtgtgtactatcct--tcattaaggtgtcattgtatttcat--------catgttagtttgggacactcatgctatttctttttgtttgtatcag
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GGGATCCCACTCTTGCAGTTGTTGCTTACCGCAGAGGACAGTGTGATGATGAACTTATCAATGTTACAAATAAAAACTCTTTGTTCAAACTGCAGGCCAGgtttgtttatcatgctgatggttaagaggtctttgcttcacataaagcctgcagatttttattgacctattattttttcccttttttttgttattag
upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 23
lower sequence: PP1S147_10V6.1 (Physcomitrella patens), 5'ss of exon 11
GGGATCCTACACTTGCTGTTGTTGCTTACCGAAGGGGGCAATGTGATGATGAGCTTGTTAATGTTTCCAATAAAAATTCCTTGTTCAAACTCCAAGCCAGgtgtgtgtactatccttcattaag-gtgtcattgtat----ttcatcatgttagtttgggacac-tcatgctatttctttttgtttgtatcag-------
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GCGACCCAACTCTTGCTGTGGTAGCATACAAACGTGGCAATTGTGATGATGAGCTTGTCAATGTCACCAACAAGAATTCTCTCTTCAAACTCCAGGCCAGgtgaaaatgattctactgataatgtgtgctctttgataagttccacgttgcaaggttgaaacacattatgtgaagtatttgtattattatcttattgtcaMapped 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|193561398|gb|FK518951.1|FK518951EST: GAGC-TGTTAATGTTTCCAATAAAAATTCCTTGTTCAAACTCCAAGCCAG ATATGTTGTGGAACGTATGAATGCTGACCTCTGGGAGAAAGTTCTTAATCC
genomic: GAGCTTGTTAATGTTTCCAATAAAAATTCCTTGTTCAAACTCCAAGCCAGgtgtgtgtac ... tttgtatcagATATGTTGTGGAACGTATGAATGCTGACCTCTGGGAGAAAGTTCTTAATCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGATCCTACACTTGCTGTTGTTGCTTACCGAAGGGGGCAATGTGATGATGAGCTTGTTAATGTTTCCAATAAAAATTCCTTGTTCAAACTCCAAGCCAGgtgtgtgtactatccttcattaaggtgtcattgtatttcatcatgttagtttgggacactcatgctatttctttttgtttgtatcag
- - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT