Sequence
atgc intronic sequence ATGC exonic sequencegtatcaccgaaccacactgcatttagtttcatggtttatactcaggagtttgttcaatgagttatttagaaaagaagattgtacaaaaagtaatttcagttatatatacatcaagtttctgttgagtcttttctcctatactgagttgtttatttcatataacaatttatcactttatctaaataaatttagGTGAAAAGTGAATTGCCAAGTACCTTCAAAGCCTATCGTTATCAGCAGCACAGGTGGTCATGTGGCCCAGCTAATCTTTTCAAGAAAATGGCAATGGAAA
Basic information
species | Glycine max |
transcript | GLYMA10G34550.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G34550.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv13s0074g00500.t01 (Vitis vinifera), 3'ss of exon 5
gtatcaccgaaccacactgcatttagtttcatggtttatactcaggagtttgttcaatgagttatttagaaaagaagattgtacaaaaagtaatttcagttatatatacatcaagtttctgttgagtcttttctcctatactgagttgtttatttcatataacaatttatcactttatctaaataaatttagGTGAAAAGTGAATTGCCAAGTACCTTCAAAGCCTATCGTTATCAGCAGCACAGGTGGTCATGTGGCCCAGCTAATCTTTTCAAGAAAATGGCAATGGAAA
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---------------------------------------------------gtatggtttattacccatatgagaacatgct--------tcatcccaaaacattttgtaggaaagccttcttagttgttt----ctatatggacctgattgta--------------aacgctaaatcaatatacttctagGTGAAAAATGAGTTGCCCAGTACTTTCAAAGCCTACCGCTATCAGCAGCATAGGTGGTCTTGTGGTCCTGCTAATCTCTTCAAGAAAATGGCAATAGAAA
upper sequence: GLYMA10G34550.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ17366 (Selaginella moellendorffii), 3'ss of exon 5
gtatcaccgaaccacactgcatttagtttcatggtttatactcaggagtttgttcaatgagttatttagaaaagaagattgtacaaaaagtaatttcagttatatatacatcaagtttctgttgagtcttttctcctatactgagttgtttatttcatataacaatttatcactttatctaaataaatttagGTGAAAAGTGAATTGCCAAGTACCTTCAAAGCCTATCGTTATCAGCAGCACAGGTGGTCATGTGGCCCAGCTAATCTTTTCAAGAAAATGGCAATGGAAA
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--------------------------------------------------------------------------------------------------------------------gtacgtttagtaccttttcct---------tgcttagagtaagtaata--tggtttctctgttt-------ctcagGTGAAGAACGAGCTTCCCAGTACATTTAAGGCCTATCGTTATCAGCAGCACAGATGGTCATGTGGGCCGGCTAACCTCTTTCGGAAGATGATTCCGGGGG
upper sequence: GLYMA10G34550.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ35401 (Selaginella moellendorffii), 3'ss of exon 5
gtatcaccgaaccacactgcatttagtttcatggtttatactcaggagtttgttcaatgagttatttagaaaagaagattgtacaaaaagtaatttcagttatatatacatcaagtttctgttgagtcttttctcctatactgagttgtttatttcatataacaatttatcactttatctaaataaatttagGTGAAAAGTGAATTGCCAAGTACCTTCAAAGCCTATCGTTATCAGCAGCACAGGTGGTCATGTGGCCCAGCTAATCTTTTCAAGAAAATGGCAATGGAAA
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--------------------------------------------------------------------------------------------------------------------gtacgtttggtaccttttcct---------tgcttagagtaagtaata--tggtttctctgttt-------ctcagGTGAAGAACGAGCTTCCCAGTACATTTAAGGCCTATCGTTATCAGCAGCACAGATGGTCATGTGGGCCGGCTAACCTCTTTCGGAAGATGATTCCGGGGGMapped 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|254320924|gb|GR827373.1|GR827373EST: CTCAAAGGCGGGAAATTTGTGTATCTTAGCGATCTCAAG GTGAAAAGTGAATTGCCAAGTACCTTCAAAGCCTATCGTTATCAGCAGCAC
genomic: CTCAAAGGCGGGAAATTTGTGTATCTTAGCGATCTCAAGgtatcaccga ... ataaatttagGTGAAAAGTGAATTGCCAAGTACCTTCAAAGCCTATCGTTATCAGCAGCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactgagttgtttatttcatataacaatttatcactttatctaaataaatttagGTGAAAAGTGAATTGCCAAGTACCTTCAAAGCCTATCGTTATCAGCAGCACAGGTGGTCATGTGGCCCAGCTAATCTTTTCAAGAAAATGGCAATGGAAA
atctaaa putative branch site (score: 3)
tttatttcatataaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcaccgaaccacactgcatttagtttcatggtttatactcaggagtttgttcaatgagttatttagaaaagaagattgtacaaaaagtaatttcagttatatatacatcaagtttctgttgagtcttttctcctatactgagttgtttatttcatataacaatttatcactttatctaaataaatttagGTGAAAAGTGAATTGCCAAGTACCTTCAAAGCCTATCGTTATCAGCAGCACAGGTGGTCATGTGGCCCAGCTAATCTTTTCAAGAAAATGGCAATGGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA