Sequence
atgc intronic sequence ATGC exonic sequence...gaaacaaaatataaagtttcatgattaagtttccatagactttttaattctcttattcttctatgaactttggtgtgaacttagtgaactcttgttccagGGTTGTTAGCCAGGTTGAATATCCCTCACTGGTTGATCTGAGGGGGCTTCTTCTGGACTTAGTTGCTCAACTCTTAGGTGCTCTGTCCCGTATCAG
Basic information
species | Glycine max |
transcript | GLYMA19G04970.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G04970.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G15680.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------gaaacaa---aatataaagtttcatgattaagtttccatagactttttaattctcttattc----ttctatgaactttggtgtgaa----cttagtgaactcttgttccagGGTTGTTAGCCAGGTTGAATATCCCTCACTGGTTGATCTGAGGGGGCTTCTTCTGGACTTAGTTGCTCAACTCTTAGGTGCTCTGTCCCGTATCAG
| ||| ||| | | | | | || | | | | ||| || | || || || ||| | | | | || ||| ||| ||||||||||||||| || ||||| || || ||||| ||| ||||||| || ||||| ||||| |||||||||||| | ||||| ||||||||||| ||
gtagtgatttcagaatctggaacggttgaattttatatgattcgctaaacacttcttttatcctttggcattcctttttcgagttgtaaaaacctgaatttctaagttctgggtgcttctccgttacagGGTTGTTAGCCAAGTGGAATACCCATCGCTGGTCGATTTGAGGGGTCTCCTTCTTGACTTGGTTGCTCAACTCCTGGGTGCACTGTCCCGTATTAG
upper sequence: GLYMA19G04970.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0083g00750.t01 (Vitis vinifera), 3'ss of exon 5
gaaacaaaatataaagtttcatgattaagtttccatagactttttaattctcttattcttcta-tgaactttggtgtgaacttagtgaactcttgttccagGGTTGTTAGCCAGGTTGAATATCCCTCACTGGTTGATCTGAGGGGGCTTCTTCTGGACTTAGTTGCTCAACTCTTAGGTGCTCTGTCCCGTATCAG
|||| | | | | | | | | | | | |||||| | | || || | | ||| | ||||| | || | ||| ||||||||||||||||||||||||||| |||||||| || |||| ||| | || ||| |||||||||||||| | |||||| | || || |||||
-gtgggaaatgttgtaatctttattctgttgtactttaagctcattattctcatttgctcatagttttccttgttatgaacacaacatttattttctgcagAGTTGTTAGCCAGGTTGAATATCCCTCATTGGTTGATTTGCGGGGACTTTTGCTAGACCTAGTTGCTCAACTCCTTGGTGCTTTATCTCGGATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattctcttattcttctatgaactttggtgtgaacttagtgaactcttgttccagGGTTGTTAGCCAGGTTGAATATCCCTCACTGGTTGATCTGAGGGGGCTTCTTCTGGACTTAGTTGCTCAACTCTTAGGTGCTCTGTCCCGTATCAG
ttttaat putative branch site (score: 3)
ctcttgttcc putative PPT
ttattctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaacaaaatataaagtttcatgattaagtttccatagactttttaattctcttattcttctatgaactttggtgtgaacttagtgaactcttgttccagGGTTGTTAGCCAGGTTGAATATCCCTCACTGGTTGATCTGAGGGGGCTTCTTCTGGACTTAGTTGCTCAACTCTTAGGTGCTCTGTCCCGTATCAG
-aaacaaa
- - - - - - - - -ttcatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttagtg