Sequence
atgc intronic sequence ATGC exonic sequence...attatggttttgaatgtgatgttcaagccaattatattgttaccttcttgtggttctttgaacaaattcacttggttacacttccatctgactcttttagTGTGGAGCAACTAAAAGACCTTGGCTGCAAGTGGGTTATTCTTGGACATTCTGAGCGAAGACATGTAATTGGAGAAAATGATGAG
Basic information
species | Glycine max |
transcript | GLYMA10G06740.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G06740.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os09g36450.1 (Oryza sativa), 3'ss of exon 4
---attatggttttgaatgtgatgttcaagc-caattatattgttaccttcttgtggttctttgaacaaattcacttggttacacttc-catctgactcttttagTGTGGAGCAACTAAAAGACCTTGGCTGCAAGTGGGTTATTCTTGGACATTCTGAGCGAAGACATGTAATTGGAGAAAATGATGAG
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attatggtagctttgaattttaag--caagcgcaaaaagataattttttgtttcttgttttcacactggagttttta---tatgtttcacctaaaatgtctatagTGCGGAGCAATTGGTGGACATTGGCTGCCAATGGGTTATTCTTGGGCATTCAGAGCGTAGACATGTCATTGGTGAAGATGATCAG
upper sequence: GLYMA10G06740.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G002807_T01 (Zea mays), 3'ss of exon 4
------------------------------------------------------------------------------------------attatggtttt---gaatgtgatgttcaagccaatta------tattgttaccttcttgtggttctttgaacaaattcacttggttacacttccatctgactcttttagTGTGGAGCAACTAAAAGACCTTGGCTGCAAGTGGGTTATTCTTGGACATTCTGAGCGAAGACATGTAATTGGAGAAAATGATGAG
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gttgggtacactggacactgagcacccttttctttgctaactatatacatagagattgcaactatctgtaaagcggttataaaatccagtctgttggttttactggatggactttgtataatagttaacgagggattgggagctttttcttcacttctggttttgctaatagagttttatctttcccttaaaattacagTGCCGAACAACTGGTGGACATCGGCTGTCAATGGGTTATTCTTGGACACTCTGAGCGTAGACATATTATTGGTGAAAATGATGAG
upper sequence: GLYMA10G06740.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G852968_T02 (Zea mays), 3'ss of exon 4
attatgg-ttttgaatgtgatgttcaagccaattatattgttaccttcttgtggttctttgaacaaatt-cacttggttacacttccatctgactcttttagTGTGGAGCAACTAAAAGACCTTGGCTGCAAGTGGGTTATTCTTGGACATTCTGAGCGAAGACATGTAATTGGAGAAAATGATGAG
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gggatggactttgtataatatgtaacagcggattaggagcttattatttcacttctagctttgctaatggcagtt--ttacctttcccttaaaatattacagTGCAGAACAACTGGTGGACATCGGTTGTCAATGGGTTATTCTTGGACACTCAGAGCGTAGACATATTATTGGTGAAAATGACGAG
upper sequence: GLYMA10G06740.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G21170.2 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------attatggttttg-aatgtgatgttcaagccaattatattgttaccttcttgtggttctttgaacaaattca-----cttggttacacttccatctgactctttt--------agTGTGGAGCAACTAAAAGACCTTGGCTGCAAGTGGGTTATTCTTGGACATTCTGAGCGAAGACATGTAATTGGAGAAAATGATGAG
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gttacgacttctctttttcacttatactatatctctttttatttgattgaaattttttgacgaaaatattagagcgttgcaactaatccctccttatgactttccggtgtaatatatgaaccttgtctgaatttcaaagttgcccgttttaccatacagCGTGGAACAGCTCAAAGACCTTGGCTGCAAGTGGGTCATTCTTGGGCATTCCGAACGGAGACATGTCATCGGAGAAAAAGATGAGMapped 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|9258593|gb|BE346740.1|BE346740EST: AGAATTCTTGGGTGGGAAAAGGTGGGGCTTTCACGGGAGAAATCAG TGTGGAGCAACTAAAAGACCTTGGCTGCAAGTGGGTTATTCTTGGACATTC
genomic: AGAATTCTTGGGTGGGAAAAGGTGGGGCTTTCACGGGAGAAATCAGgttagcttgc ... actcttttagTGTGGAGCAACTAAAAGACCTTGGCTGCAAGTGGGTTATTCTTGGACATTC
EST:
gi|207796597|gb|GD770759.1|GD770759EST: GCCCAGAATTCTTGGGTGGGAAAAGGTGGGGCTTTCACGGGAGAAATCAG TGTGGAGCAACTAAAAGAC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGGGCTTTCACGGGAGAAATCAGgttagcttgc ... actcttttagTGTGGAGCAACTAAAAGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgtggttctttgaacaaattcacttggttacacttccatctgactcttttagTGTGGAGCAACTAAAAGACCTTGGCTGCAAGTGGGTTATTCTTGGACATTCTGAGCGAAGACATGTAATTGGAGAAAATGATGAG
atctgac putative branch site (score: 3)
ctctttt CT-rich tract
aacaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attatggttttgaatgtgatgttcaagccaattatattgttaccttcttgtggttctttgaacaaattcacttggttacacttccatctgactcttttagTGTGGAGCAACTAAAAGACCTTGGCTGCAAGTGGGTTATTCTTGGACATTCTGAGCGAAGACATGTAATTGGAGAAAATGATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - -gaatgtg
- - - - - - - - - - -ttcaagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacttcc