Sequence
atgc intronic sequence ATGC exonic sequencegttattctgaactcaatacctttctagttattttgttgttccttcaatgcattggcctgagcaaatttatatatctaaattatctagATATTATGCCATTGCGACTCCTAGTGCAACTCAAAGACTACTTCTTGGACTTTTAGAAGCACCCCCATCATGGGCTCCGGATGCCCTTGATGCTGCTGTG
Basic information
species | Glycine max |
transcript | GLYMA09G07240.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G07240.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G844173_T01 (Zea mays), 3'ss of exon 8
gttattctgaactcaatacctttctagttattttgttgttccttcaatgcattggcctgagcaaatttatatatctaaattat--ctagATATTATGCCATTGCGACTCCTAGTGCAACTCAAAGACTACTTCTTGGACTTTTAGAAGCACCCCCATCATGGGCTCCGGATGCCCTTGATGCTGCTGTG
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---------------gtaa-tctccagtt-cactgctatgctttca-tctacttccagataaaattttaaatgggttattttttcccagATATTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTCGAAGCACCTCCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
upper sequence: GLYMA09G07240.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 9
gttattctgaactcaatacctttctagttattttgttgttccttcaatgcattggcctgagcaaatttatatatctaaattatctagATATTATGCCATTGCGACTCCTAGTGCAACTCAAAGACTACTTCTTGGACTTTTAGAAGCACCCCCATCATGGGCTCCGGATGCCCTTGATGCTGCTGTG
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------gtaagctccagttcact---gctatgcttaatccacttcaagatatttttttagtgggatcttttccttt--------cagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
upper sequence: GLYMA09G07240.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G22770.1 (Arabidopsis thaliana), 3'ss of exon 7
-------------------------------gttattctgaactcaatacctttctagttattttgttgt---tccttcaatgcattggcctgagcaaatttat-atatctaaattat----ctagATATTATGCCATTGCGACTCCTAGTGCAACTCAAAGACTACTTCTTGGACTTTTAGAAGCACCCCCATCATGGGCTCCGGATGCCCTTGATGCTGCTGTG
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gtattgtttctgggcttaccctttcaattagggtttattggtagtagtctgttgctagttttaaggttgtgcttcctcgaatccctagatcagaattgttttctcactttcctgttatactgtcagATACTATGCCATTGCAACTCCAAGTGCTACGCAGAGACTTCTTCTTGGACTCTTAGAAGCACCACCGTCGTGGGCTCCAGATGCACTTGATGCTGCTGTA
upper sequence: GLYMA09G07240.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 9
------------------------------------------gttattctgaactcaatacctttctagttattttgttgttccttcaatgcattggcctgagcaaatttatatatctaaattatctagATATTATGCCATTGCGACTCCTAGTGCAACTCAAAGACTACTTCTTGGACTTTTAGAAGCACCCCCATCATGGGCTCCGGATGCCCTTGATGCTGCTGTG
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gtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtg-gtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTAMapped 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|120531323|gb|EH259456.1|EH259456EST: CTCGTTGCTGGATTACCGGCTCTAGAACCATATGCACGTTTATTTCACAG ATATTATGCCATTGCGACTCCTAGTGCAACTCAAAGACTACTTCTTGGACT
genomic: CTCGTTGCTGGATTACCGGCTCTAGAACCATATGCACGTTTATTTCACAGgttattctga ... aattatctagATATTATGCCATTGCGACTCCTAGTGCAACTCAAAGACTACTTCTTGGACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttgttccttcaatgcattggcctgagcaaatttatatatctaaattatctagATATTATGCCATTGCGACTCCTAGTGCAACTCAAAGACTACTTCTTGGACTTTTAGAAGCACCCCCATCATGGGCTCCGGATGCCCTTGATGCTGCTGTG
atctaaa putative branch site (score: 3)
agcaaatttatatatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattctgaactcaatacctttctagttattttgttgttccttcaatgcattggcctgagcaaatttatatatctaaattatctagATATTATGCCATTGCGACTCCTAGTGCAACTCAAAGACTACTTCTTGGACTTTTAGAAGCACCCCCATCATGGGCTCCGGATGCCCTTGATGCTGCTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT