Sequence
atgc intronic sequence ATGC exonic sequencegtatatttctgtggaatttctaattataaactatagacggatccacctttgttatccaatttttttatgattcttatgttttttttttttttttcacagTTACTTCCTTTATTAGCTTCTGCCCTTGAATTTGGTTCAGCTGCTGCCTCAGCTTTGACTGCATTGTTGAAAATGGGTTCCTGGCTTTCAGCTGAGGAGT
Basic information
species | Glycine max |
transcript | GLYMA09G38740.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G38740.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os01g60440.1 (Oryza sativa), 3'ss of exon 9
gtatatttctgtggaatttctaat-tataaactatagacggatccacctttgttatccaatttttttatg-attcttatgttttttttttttttttcacagTTACTTCCTTTATTAGCTTCTGCCCTTGAATTTGGTTCAGCTGCTGCCTCAGCTTTGACTGCATTGTTGAAAATGGGTTCCTGGCTTTCAGCTGAGGAGT
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-------------------gtaatgttcaagtcatgaatagaacc-cattattcccccggttcttgtttatatgcttatcggttggttactctgtcaatagTTGCTCCCTGTGCTGGCATCTGCTCTTGAGTTTGGTTCAGCTGCTGCACCAGCCTTGGTTGTATTGTTGAAGATGGGTTCCTGGCTTCCAGCTGACCAAT
upper sequence: GLYMA09G38740.1 (Glycine max), 3'ss of exon 9
lower sequence: AC218972.3_FGT001 (Zea mays), 3'ss of exon 9
----------------------------------------gtatatttctgtggaatttctaattataaactatagacggatccacctttgttatccaatttttttatgattcttatgttttttttttttttttcacagTTACTTCCTTTATTAGCTTCTGCCCTTGAATTTGGTTCAGCTGCTGCCTCAGCTTTGACTGCATTGTTGAAAATGGGTTCCTGGCTTTCAGCTGAGGAGT
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gtacttccaaagtgtcaagtagaaccctctattccctcgttcatgattattctctacctttgtttattcgtttcaaaccag-ccaggtgagtaggtgaccttatttgtatacttattatttgggttactttgtgcacagCTGCTCCCTGTATTGGCTTCTTCTCTTGAATTTGGTTCAGCTGCCGCTCCAGCCTTAACTGTTTTGTTAAAGATGGGTTCCTGGCTTCCTGCTGACCAAT
upper sequence: GLYMA09G38740.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G40730.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatatttctgtggaatttctaattataaactatag-acggatccaccttt---gttatccaatttttttatgattcttatgttttttttttttttttca--cagTTACTTCCTTTATTAGCTTCTGCCCTTGAATTTGGTTCAGCTGCTGCCTCAGCTTTGACTGCATTGTTGAAAATGGGTTCCTGGCTTTCAGCTGAGGAGT
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gtatgaatctg---aatttt--attgggtactaggataacaatttaccttttgagttggaggttttgtgttttgctttttgactttaaccttttggttaatgcagCTTCTTCCTTTATTAGCTTCTTCCCTTGAATTTGGTTCAGCTGCTGCTCCTGCATTAACTGCCTTACTTAAGATGGGTTCGTGGTTATCAACTGAAGATT
upper sequence: GLYMA09G38740.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv13s0067g03110.t01 (Vitis vinifera), 3'ss of exon 9
gtatatttctgtggaatttctaattataaactatagacggatccacctttgttatccaatttttttatgattcttatgttttttttttttttttcacagTTACTTCCTTTATTAGCTTCTGCCCTTGAATTTGGTTCAGCTGCTGCCTCAGCTTTGACTGCATTGTTGAAAATGGGTTCCTGGCTTTCAGCTGAGGAGT
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--gtgtgactattga-tttctgatgtgaaatgtcacacttagttctaacagcaatgtttttccatgccaagttctgattttgtcattttctattcacagTTACTTCCTATGTTGGCCTCCGCTTTAGAATTTGGTTCAGCTGCTGCTCCTGCCTTGACTGCACTATTGAAAATGGCTTCTTGGCTTTCAGCTGAAGATTMapped 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|17021829|gb|BM092863.1|BM092863EST: AGCTTCCAAATTTAGCTGAGCAACTTCCTCGCCAGATAGTGTTGAAGAAG TTACTTCCTTTATTAGCTTCTGCCCTTGAATTTGGTTCAGCTGCTGCCTCA
genomic: AGCTTCCAAATTTAGCTGAGCAACTTCCTCGCCAGATAGTGTTGAAGAAGgtatatttct ... tttttcacagTTACTTCCTTTATTAGCTTCTGCCCTTGAATTTGGTTCAGCTGCTGCCTCA
EST:
gi|254342248|gb|GR853385.1|GR853385EST: AGCTTCCAAATTTAGCTGAGCAACTTCCTCGCCAGATAGTGTTGAAGAAG TTACTTCCTTTATTAGCTTCTGCCCTTGAATTTGGTTCAGCTGCTGCCTCA
genomic: AGCTTCCAAATTTAGCTGAGCAACTTCCTCGCCAGATAGTGTTGAAGAAGgtatatttct ... tttttcacagTTACTTCCTTTATTAGCTTCTGCCCTTGAATTTGGTTCAGCTGCTGCCTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acctttgttatccaatttttttatgattcttatgttttttttttttttttcacagTTACTTCCTTTATTAGCTTCTGCCCTTGAATTTGGTTCAGCTGCTGCCTCAGCTTTGACTGCATTGTTGAAAATGGGTTCCTGGCTTTCAGCTGAGGAGT
tttttttatgattctt CT-rich tract
aatttttttatgattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatttctgtggaatttctaattataaactatagacggatccacctttgttatccaatttttttatgattcttatgttttttttttttttttcacagTTACTTCCTTTATTAGCTTCTGCCCTTGAATTTGGTTCAGCTGCTGCCTCAGCTTTGACTGCATTGTTGAAAATGGGTTCCTGGCTTTCAGCTGAGGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG