Sequence
atgc intronic sequence ATGC exonic sequence...tttaattattgttgttgctaattattataattaattatttattaattacttataagtgtttctgctgactggtgacatgtgacattcataaattttgcagATCTTACGAAAGTTAAAGCATGGAAATATTATTCAAATGCTCGATTCCTTTGAAAGCCCGCAAGAATTTTGTGTTGTTACAGAATTTGCACAA
Basic information
species | Glycine max |
transcript | GLYMA10G22860.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G22860.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv16s0039g02400.t01 (Vitis vinifera), 3'ss of exon 2
-tttaattattgttgttgctaattattataatta-attatttattaattacttataagtgtttctgctgactggtgacatgtgacattcataaattttgcagATCTTACGAAAGTTAAAGCATGGAAATATTATTCAAATGCTCGATTCCTTTGAAAGCCCGCAAGAATTTTGTGTTGTTACAGAATTTGCACAA
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gataaagtgtaatcagttttatttgaaattccaacacttctaatgaattttttaattgtttttcagatgatt--tgatgaatggtttatctaaatgttgcagATTTTGAGGAAGCTGAAACATGAAAATATCATTGAAATGCTCGACTCCTTTGAGACCCCTCAAGAGTTCTGCGTTGTCACAGAATTTGCACAA
upper sequence: GLYMA10G22860.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S53_93V6.1 (Physcomitrella patens), 3'ss of exon 2
tttaattattgttgttgctaattattataattaattatttattaattacttataagt--gtttctgctg-actggtgacatgtgacattcataaattttgcagATCTTACGAAAGTTAAAGCATGGAAATATTATTCAAATGCTCGATTCCTTTGAAAGCCCGCAAGAATTTTGTGTTGTTACAGAATTTGCACAA
||| | ||| | || | | | | ||| | || | || || | | ||| | | || ||| | | || | | | | | ||||| || || | |||||||||| ||||| ||| ||||||| ||| ||||||||||||| || || || |||||||| || || ||||| ||
tttcacgattat-gtaatca--tgtagtttttatgtgttaaagaaataatcaaaagacgggatttgtaatacttgcaattcgttaagtaccatgtctctccagATATTGCGGCAATTAAAGCATGAGAATATCATTGAAATGCTTGATGCCTTTGAAAGCCCCCAGGAGTTCTGTGTTGTGACTGAGTTTGCTCAG
upper sequence: GLYMA10G22860.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ37043 (Selaginella moellendorffii), 3'ss of exon 2
tttaattattgttgttgctaattattataattaattatttattaattacttataagtgtttctgctgactggtgacatgtgacattcataaattttgc---agATCTTACGAAAGTTAAAGCATGGAAATATTATTCAAATGCTCGATTCCTTTGAAAGCCCGCAAGAATTTTGTGTTGTTACAGAATTTGCACAA
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-----------------------------------------------------gagtgcgtgttccgagagatttcttcttttctaagaagattttacttCAGATTTTGCGGCAACTAAAGCACGAGAACATTATAGAAATGCTGGATGCATTTGAAAGCCCACAGGAGTTTTGTGTCGTGACAGAATTTGCACAG
upper sequence: GLYMA10G22860.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ33693 (Selaginella moellendorffii), 3'ss of exon 2
tttaattattgttgttgctaattattataattaattatttattaattacttataagtgtttctgctgactggtgacatgtgacattcataaattttgcagATCTTACGAAAGTTAAAGCATGGAAATATTATTCAAATGCTCGATTCCTTTGAAAGCCCGCAAGAATTTTGTGTTGTTACAGAATTTGCACAA------
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--------------------------------------------gtagagtgcgagtgttccgagagatttcttcttttctaagaagattttactt-cagATTTTGCGGCAACTAAAGCACGAGAACATTATAGAAATGCTGGATGCATTTGAAAGCCCACAGGAGTTTTGTGTCGTGACAGAATTTGCACAGGCAAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacttataagtgtttctgctgactggtgacatgtgacattcataaattttgcagATCTTACGAAAGTTAAAGCATGGAAATATTATTCAAATGCTCGATTCCTTTGAAAGCCCGCAAGAATTTTGTGTTGTTACAGAATTTGCACAA
tgctgac putative branch site (score: 2)
acattcataaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaattattgttgttgctaattattataattaattatttattaattacttataagtgtttctgctgactggtgacatgtgacattcataaattttgcagATCTTACGAAAGTTAAAGCATGGAAATATTATTCAAATGCTCGATTCCTTTGAAAGCCCGCAAGAATTTTGTGTTGTTACAGAATTTGCACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acattca