Sequence
atgc intronic sequence ATGC exonic sequenceATACTTTAAGGGGCCTGAACTTCTAGTTGATTTGCAAGACTATGACTACTCATTAGATATGTGGAGCCTTGGCTGCATGTTTGCTGGAATGgtgtgaatcataactacaagtttctgattatatatggcatactcttgacatttatgcagatggtctaaatttgagcatacatgattaaaaatgtgagattctggtcataattttcattgtactttttgtag
Basic information
species | Glycine max |
transcript | GLYMA01G39950.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G39950.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os03g10940.1 (Oryza sativa), 5'ss of exon 5
ATACTTTAAGGGGCCTGAACTTCTAGTTGATTTGCAAGACTATGACTACTCATTAGATATGTGGAGCCTTGGCTGCATGTTTGCTGGAATGgtgtgaat-cataactacaagtttctgattatatat-ggcatactcttgacatttatgcagatggtctaaatttgagcatacat-gattaaaaatgtgagattctggtcataattttcattgtactttttgtag
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ATACTTCAAAGGGCCTGAATTGCTGGTTGACTTCCAAAGTTATGACTACTCTTTAGACATGTGGAGCCTTGGCTGTATGTTTGCTGGAATGgtgtgtttgccctcctatgattataaaataacctatcaaaattgccatggccttacttctgtaaatt---acttgcgtatagaaagatagcaactgttatgctttatttactgtttttgatgcag---------
upper sequence: GLYMA01G39950.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 5
ATACTTTAAGGGGCCTGAACTTCTAGTTGATTTGCAAGACTATGACTACTCATTAGATATGTGGAGCCTTGGCTGCATGTTTGCTGGAATGgtgtgaatcataactacaa---gtttctgattatat-atggcatactcttgacatttatgcagatggtctaaatttgagcatacatgattaaaaatgtgagattctggtcataattttcattgtactttttgtag
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ATACTTTAAGGGGCCAGAACTTCTTGTTGATTTGCAAGATTATGATTATTCTTTGGATATGTGGAGCCTTGGTTGCATGTTTGCGGGAATGgtgagatttactactactgttgatcttgaatcatttgaagggctgattgtgccatttacattttttgtatttattt---------taattatcattttg---ttttactcagtatactt-ctattatttatgtag
upper sequence: GLYMA01G39950.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 5
ATACTTTAAGGGGCCTGAACTTCTAGTTGATTTGCAAGACTATGACTACTCATTAGATATGTGGAGCCTTGGCTGCATGTTTGCTGGAATGgtgtgaatcataactacaagt--ttctgattatatatggcatactcttgacatttatgcagatggtctaaatttgagcatacatga-ttaaaaatgtgagattctggtcataattttcattgtactttttgtag
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ATACTTTAAGGGGCCTGAACTTCTTGTTGATTTGCAAGACTATGACTATTCTTTGGATATGTGGAGCCTAGGTTGTATGTTTGCGGGAATGgtaacagttacagtggcagttggtgttaattttcttttacatattacttgaa---atgcagtttgtctta---tcaataaatgtaactttcaactactcaatggaggtttttttcccaacag------------
upper sequence: GLYMA01G39950.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S63_208V6.1 (Physcomitrella patens), 5'ss of exon 6
ATACTTTAAGGGGCCTGAACTTCTAGTTGATTTGCAAGACTATGACTACTCATTAGATATGTGGAGCCTTGGCTGCATGTTTGCTGGAATGgtgtgaatcataactacaagtt-tctgattatatatggcatactcttgacatttatgcagatggtctaaatttgagcatacatgattaaaaatgtgagattctggtcataattttcattgtacttt-ttgtag
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ATACTTCAAGGGCCCTGAGTTGCTGGTGGATCTCCAAGATTATGACTACTCCCTTGATATGTGGAGCTTGGGATGCATGTTTGCTGGCATGgt--aacgtatcctcgcagtttattttaacactaatctttcgttatttacagtt-ttcccatgatgtgtatctgcgattttttcattctgaa---gtacttctcgttatgctgaagagattgcgtggttgcag
upper sequence: GLYMA01G39950.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ20478 (Selaginella moellendorffii), 5'ss of exon 5
ATACTTTAAGGGGCCTGAACTTCTAGTTGATTTGCAAGACTATGACTACTCATTAGATATGTGGAGCCTTGGCTGCATGTTTGCTGGAATGgtgtgaatcataactacaagtttctgattatatatggcatactcttgacatttatgcagatggtctaaatttgagcatacatgattaaaaatgtgagattctggtcataattttcattgtactttttgtag
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ATACTTCAAAGGTCCGGAGCTGCTTGTGGACCTGCAGGACTACGATTACTCTCTCGACATGTGGAGCCTAGGCTGCATGTTCGCTGGAATGgtgagtcttttgtctgatcattcgtacttgctaacgccccaagcttcacag--------------------------------------------------------------------------------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|20498616|gb|BQ273546.1|BQ273546EST: GGAGCCTTGGCTGCATGTTTGCTGGAATG ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTT
genomic: GGAGCCTTGGCTGCATGTTTGCTGGAATGgtgtgaatca ... ctttttgtagATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATACTTTAAGGGGCCTGAACTTCTAGTTGATTTGCAAGACTATGACTACTCATTAGATATGTGGAGCCTTGGCTGCATGTTTGCTGGAATGgtgtgaatcataactacaagtttctgattatatatggcatactcttgacatttatgcagatggtctaaatttgagcatacatgattaaaaatgtgagattctggtcataattttcattgtactttttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA