Sequence
atgc intronic sequence ATGC exonic sequence...tagataaacaacattatagtatatatactatgcgtttttgttatggaaagaaaaatgtactatgcgttttttaatttgagaatcactatgctttcttcagGGGTCCCGGTGTAACTGTGCTAGTCCTGTCATGGATCATTACCTTGTACACCCTATGGCAAATGGTAGAGATGCATGAAATGGTTCCTGGAAAACGTTTT
Basic information
species | Glycine max |
transcript | GLYMA19G24520.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G24520.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G40780.2 (Arabidopsis thaliana), 3'ss of exon 2
tagataaacaacattatagtatatatactatgcgtttttgttatggaaagaaaaatgtactatgcgttttttaatttgagaatcactatgctttcttcagGGGTCCCGGTGTAACTGTGCTAGTCCTGTCATGGATCATTACCTTGTACACCCTATGGCAAATGGTAGAGATGCATGAAATGGTTCCTGGAAAACGTTTT
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---gtaaattcccctaaaccaaa------accggtttattttacctaaaccggatt-tatcaaatcttaaccggttttaat----ttgttttcttttcagGGGACCGGGAATTGCAGTGTTGGTTTTGTCATGGGTCATAACACTATACACATTATGGCAAATGGTGGAAATGCATGAAATGGTTCCTGGAAAGCGTTTT
upper sequence: GLYMA19G24520.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G48640.1 (Arabidopsis thaliana), 3'ss of exon 2
-----tagataaacaacattatagtatatatactatgcgtttttgttatggaaagaaaaatgtactatgcgttttttaatttgagaatcactatgctttcttcagGGGTCCCGGTGTAACTGTGCTAGTCCTGTCATGGATCATTACCTTGTACACCCTATGGCAAATGGTAGAGATGCATGAAATGGTTCCTGGAAAACGTTTT
|| ||| | || || | | | ||||| ||| | | || | | ||| ||| ||| | ||| | | || | | | ||||| || || || | || || | || |||||||| || || | ||||| ||||||||||||| ||||||||||| |||||||| |||||||| |||
ttgaatacatatgtagttttttaatttct-tactacataaatttacttttgatttgatta-gtaatattcgtgat---attacaaagtcttgttatatatgttagGGGACCAGGCATAGCAGTCCTGATACTATCATGGATAATAACACTTTACACGTTATGGCAAATGGTGGAGATGCATGAGATGGTTCCCGGAAAACGCTTT
upper sequence: GLYMA19G24520.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0171g00400.t01 (Vitis vinifera), 3'ss of exon 2
tagataaacaacattatagtatatatactatgcgtttttgttatggaaagaaaaatgtactatgcgttt----tttaatttgagaatcactatgctttcttcagGGGTCCCGGTGTAACTGTGCTAGTCCTGTCATGGATCATTACCTTGTACACCCTATGGCAAATGGTAGAGATGCATGAAATGGTTCCTGGAAAACGTTTT
| | || || | || | | || |||| | | || | || || || | | || | || | | ||||||||||| ||||| | | || || |||||||||||||| | ||||| |||||||||||||| |||||||| || ||||||||||| ||| | |||
-----gtatgtcttttgtgtctttacaagagatagttgccttattatttatgtctgattccatttgattaaggttgaacataaaaaaaatattgatcttttcagGGGTCCTGGTGTGGTGATAATGGTGCTATCATGGATCATTACTCTTTACACACTATGGCAAATGGTTGAGATGCACGAGATGGTTCCTGGGAAAAGGTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaagaaaaatgtactatgcgttttttaatttgagaatcactatgctttcttcagGGGTCCCGGTGTAACTGTGCTAGTCCTGTCATGGATCATTACCTTGTACACCCTATGGCAAATGGTAGAGATGCATGAAATGGTTCCTGGAAAACGTTTT
ttttaat putative branch site (score: 3)
tgctttcttc putative PPT
ttttttaatttgagaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagataaacaacattatagtatatatactatgcgtttttgttatggaaagaaaaatgtactatgcgttttttaatttgagaatcactatgctttcttcagGGGTCCCGGTGTAACTGTGCTAGTCCTGTCATGGATCATTACCTTGTACACCCTATGGCAAATGGTAGAGATGCATGAAATGGTTCCTGGAAAACGTTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - aacaaca
- - - - - - - - - - - - - actatgc
- - - - - - - - - - - - - - - - - - - tgttatg
- - - - - - - - - - - - - - - - - - - - - - - -aagaaaa