Sequence
atgc intronic sequence ATGC exonic sequenceGTCTTGATTTAGTTGGTAAATCTTCAGTTCAATATAAAAATGCAGATATAATCATCTTCAACACCGGTCACTGGTGGACTCATGATAAGACTTCTAAAGGgtaaatggaaaaatgcattagaaattcttagatgtgattgtagttctggcttttcattctcaaccttcttatttatattttgttttctatgattacaagtcaagaccttgttaactaactagtccaagtaaaattctag
Basic information
species | Glycine max |
transcript | GLYMA09G16780.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G16780.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os02g53380.1 (Oryza sativa), 5'ss of exon 3
GTCTTGATTTAGTTGGTAAATCTTCAGTTCAATATAAAAATGCAGATATAATCATCTTCAACACCGGTCACTGGTGGACTCATGATAAGACTTCTAAAGGgtaaatggaaaaatgcattagaaattcttagatgtgattgtagttctggcttttcattctcaaccttcttatttatattttgttttctatgatta-caagtcaagaccttgttaactaactagtccaagtaaaattctag
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GGCTTGACATGATCAGCAACTCTTTCCCGAGGTACAAGGATGCGGATATCATCATCTTCAATACCGGGCACTGGTGGACTCATGAAAAAACTTCTCTAGGgtaagttggaa-------ttggtgctttctgattttgctgaagatctg-catgccatgc---gttctgcatttcaagtgttgcttaccactgttagtatgttgaacctgtcacag-------------------------
upper sequence: GLYMA09G16780.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM5G843892_T01 (Zea mays), 5'ss of exon 3
GTCTTGATTTAGTTGGTAAATCTTCAGTTCAATATAAAAATGCAGATATAATCATCTTCAACACCGGTCACTGGTGGACTCATGATAAGACTTCTAAAGGgtaaatggaaaaatgcattag--aaattcttagatgtgattgtagttctggcttttcattctcaaccttcttattta-tattttgttttctatgattacaagtcaagaccttgttaactaactagtccaagtaaaattctag
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GGCTTGACGTCATCGATCCAGCGTTCCCGAGGTACAAGAACGCAGATATCATTATCTTCAACACTGGTCACTGGTGGACGCATGACAAAACTTCTCTAGGgtgagcaaaacaatgcattgcctgattcactgaagatctgtgcagttcagacatcctgcatttccatttgccatgtactgttctgattatttt--ttagaaaaaaaaaatgtgccgcag-----------------------
upper sequence: GLYMA09G16780.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0007g06680.t01 (Vitis vinifera), 5'ss of exon 3
GTCTTGATTTAGTTGGTAAATCTTCAGTTCAATATAAAAATGCAGATATAATCATCTTCAACACCGGTCACTGGTGGACTCATGATAAGACTTCTAAAGGgtaaatggaa---aaatgcattagaaattcttagatgtgattgtagttctggcttttcattctcaaccttcttatttatattttgttttctatgattacaagtcaagaccttgttaactaactagtccaagtaaaattctag
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GACTCGATAAAATCCCGACGTCCTCCGACAAATACAAGACAGCAGATATCATCATCTTCAATACAGGACATTGGTGGACTCATGATAAAACTTCCAAAGGgtaagtgcatgctaaatccaaaagagcctctgacttgaaaccctacacaacgaaactaagtagcaaggaa--aaattgcag-------------------------------------------------------------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|151406520|gb|EV276335.1|EV276335EST: CAACACCGGTCACTGGTGGACTCATGATAAGACTTCTAAAGG GAAGGACTATTACCAAGAGGGTAGCCATGTCTATGATGAGCTGAATGTTTT
genomic: CAACACCGGTCACTGGTGGACTCATGATAAGACTTCTAAAGGgtaaatggaa ... aaaattctagGAAGGACTATTACCAAGAGGGTAGCCATGTCTATGATGAGCTGAATGTTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCTTGATTTAGTTGGTAAATCTTCAGTTCAATATAAAAATGCAGATATAATCATCTTCAACACCGGTCACTGGTGGACTCATGATAAGACTTCTAAAGGgtaaatggaaaaatgcattagaaattcttagatgtgattgtagttctggcttttcattctcaaccttcttatttatattttgttttctatgattacaagtcaagaccttgttaactaactagtccaagtaaaattctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA