Sequence
atgc intronic sequence ATGC exonic sequence...agagaagaaagaatttgaagtggttgaagttctttcttttcaaacccacaattgcttgtttgagaatctgtagtactaacctgtgttgtaaaatatgtagGTAAGTAGCCATGAAACCAGTTTAGTTGCTCGATGTCGTAGAGTGTATGCACACGCTCATGATTATCACATCAATTCTATTTCAAATAACAG
Basic information
species | Glycine max |
transcript | GLYMA15G02640.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
agagaagaaagaatttgaagtggtt-gaagttctttcttttcaaacccacaattgcttgtt--tgagaatctgtagtactaacctgtgttgtaaaatatgtagGTAAGTAGCCATGAAACCAGTTTAGTTGCTCGATGTCGTAGAGTGTATGCACACGCTCATGATTATCACATCAATTCTATTTCAAATAACAG
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--catggccttcactaccactgattaggaattgattcttaagtcatgcaatattacttaatattgctcatttgtag-actaatagttcatttgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 5
agagaagaaagaatttgaagtggttgaagttctttcttttcaaacccacaattgcttgtt-tgagaatctgtagtacta-acctgtgttgtaaaatatgtagGTAAGTAGCCATGAAACCAGTTTAGTTGCTCGATGTCGTAGAGTGTATGCACACGCTCATGATTATCACATCAATTCTATTTCAAATAACAG
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--gttccaaggtatacttagttattacgtcattggatgtttaataagtttagtgttcatgataactgcctgtgatctaacacttccagtatacaatatgtagGTATCAAGCCCTGAGACCAGCCTGGTGGCTAGATGTCGTAGAGTTTATGCTCATGCTCACGACTATCATATCAATTCTATTTCAAATAATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccacaattgcttgtttgagaatctgtagtactaacctgtgttgtaaaatatgtagGTAAGTAGCCATGAAACCAGTTTAGTTGCTCGATGTCGTAGAGTGTATGCACACGCTCATGATTATCACATCAATTCTATTTCAAATAACAG
tactaac putative branch site (score: 0)
ttgtaaaatatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agagaagaaagaatttgaagtggttgaagttctttcttttcaaacccacaattgcttgtttgagaatctgtagtactaacctgtgttgtaaaatatgtagGTAAGTAGCCATGAAACCAGTTTAGTTGCTCGATGTCGTAGAGTGTATGCACACGCTCATGATTATCACATCAATTCTATTTCAAATAACAG
- - aagaaaga
- - - - - - - - - -gtggttg
- - - - - - - - - - - - - - - - - - - -tcaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgtgt