Sequence
atgc intronic sequence ATGC exonic sequence...tttaatacatttgaaaagtggtcatatgtttcttatcattaggactcaccaaaaagctctcttttttaattttgaatgattttacgaattcgtcgtgcagTTGATTGGAAATACGCCAATGGTGTACCTCAATAAAGTTACGGAAGGTTGTGTGGCTAACATTGCTGCAAAACTTGAGTCTATGGAACCTTGCCGAAGTG
Basic information
species | Glycine max |
transcript | GLYMA03G00900.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G00900.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G133359_T01 (Zea mays), 3'ss of exon 1
--tttaatacatttgaaa-agtggtcatatgtttcttatcattaggactcaccaaaaagctctcttttttaattttgaatgattttacgaattcgtcgtgcagTTGATTGGAAATACGCCAATGGTGTACCTCAATAAAGTTACGGAAGGTTGTGTGGCTAACATTGCTGCAAAACTTGAGTCTATGGAACCTTGCCGAAGTG
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tagcaactgtataggggatagctggcaaaaatccttt-tctttagcgtttcagtatgcccaatcacgtctctgataaaatgtgtttatgtgct-gtta-acagCTCATTGGAAAAACACCAATGGTGTATCTCAATAGAGTTGCTGACGGATGTGTGGCTAATATCGCTGCAAAGCTCGAGTACATGGGACCTTGCCGAAGTG
upper sequence: GLYMA03G00900.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G03630.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------tttaatacatttgaaaagtggtcatatgtttctta-tcattaggactcaccaaaaagctctcttttttaattttgaatgattttacgaattcgtcgtgcagTTGATTGGAAATACGCCAATGGTGTACCTCAATAAAGTTACGGAAGGTTGTGTGGCTAACATTGCTGCAAAACTTGAGTCTATGGAACCTTGCCGAAGTG
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gtgagttcaaaggattcaaattttactaagctt-atgagtaaagagacgtttttttcttattaaagattag-attatgtgatgaagtttgataatttaggattcga-actttgtttgtatagTTGATTGGAAGCACACCAATGGTCTATCTCAATAGAGTCACAGATGGTTGTTTGGCTGACATTGCTGCCAAGCTCGAATCAATGGAGCCCTGTAGAAGCG
upper sequence: GLYMA03G00900.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0056g00820.t01 (Vitis vinifera), 3'ss of exon 1
tttaatacatttgaaaagtggtcatatgtttcttatcattaggactcaccaaaaagctctcttttttaa--ttttgaatgattttacgaattcg--tcgtgcagTTGATTGGAAATACGCCAATGGTGTACCTCAATAAAGTTACGGAAGGTTGTGTGGCTAACATTGCTGCAAAACTTGAGTCTATGGAACCTTGCCGAAGTG
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tactgtaaatt---gaagtataaaagtttttctt-tcaatagttttttatttttatttttatgtttgaaaacattgactgatttgagcagctaaaatgatatagTTGATCGGGAGAACACCAATGATTTATCTCAACAAGGTAACACAAGGCTGTGTGGCAAATATTGCTGCTAAACTCGAATCTATGGAACCTTGCCGAAGTGMapped 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|208116227|gb|GD919578.1|GD919578EST: CCACCAGACAAGGGTTTGACACCGTCAACATTGCCGAAGATGTCACCCAG TTGATTGGGAATACGCCAATGGTGTACCTCAATAAAGTTACGGAAGGTTGT
genomic: CCACCAGACAAGGGTTTGACACCGTCAACATTGCCGAAGATGTCACCCAGgtactctact ... cgtcgtgcagTTGATTGGAAATACGCCAATGGTGTACCTCAATAAAGTTACGGAAGGTTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaccaaaaagctctcttttttaattttgaatgattttacgaattcgtcgtgcagTTGATTGGAAATACGCCAATGGTGTACCTCAATAAAGTTACGGAAGGTTGTGTGGCTAACATTGCTGCAAAACTTGAGTCTATGGAACCTTGCCGAAGTG
ttttttaattttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaatacatttgaaaagtggtcatatgtttcttatcattaggactcaccaaaaagctctcttttttaattttgaatgattttacgaattcgtcgtgcagTTGATTGGAAATACGCCAATGGTGTACCTCAATAAAGTTACGGAAGGTTGTGTGGCTAACATTGCTGCAAAACTTGAGTCTATGGAACCTTGCCGAAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - catatgt
- - - - - - - - - - - - - - - - - - - - - - - caccaaa