Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgtggttgaaatttaacaattttttatattgtgtatgtttataagtgtgcaactacaaaaggaaaataaaagttcaagctgatactcatagcctgctctcttgtactgtactccaatagAGGGAAAAAATGGATACATTTTGGTTACTGCAAATGGTGGGATCAATCAACAACGAGTAGCT
Basic information
species | Glycine max |
transcript | GLYMA17G01390.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G01390.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G62330.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgtgtggttgaaatttaacaattttttatattgtgtatgtttataagtgtgcaactacaaaaggaaaataaaagttcaagctgatactcatagcctgctctcttgtactgtactccaatagAGGGAAAAAATGGATACATTTTGGTTACTGCAAATGGTGGGATCAATCAACAACGAGTAGCT
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-------------------------gtctcttactcttactctcaatgagtttatttctcgtactatataggtatagttttt-ctgatttttgt-gtttttttttgtgtgtggagtt----tagATGGTAAAAATGGATATATAATGGTAACTGCAAATGGTGGGATCAACCAACAGAGAGTTGCT
upper sequence: GLYMA17G01390.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv10s0116g00130.t01 (Vitis vinifera), 3'ss of exon 6
gtatgtgtggttgaaatttaacaattttttatattgtgtatgtttataagtgtgcaactacaaaaggaaaataaaagttcaagctgatactcatagcctgctctcttgtactgtactccaatagAGGGAAAAAATGGATACATTTTGGTTACTGCAAATGGTGGGATCAATCAACAACGAGTAGCT
| | || | || | || | |||| |||| | || |||||||| || | | || | | | | |||| |||||||||| ||||||||||||||| |||||||||||||||| ||||| || || |||||||||
--------------------gtgactcttc-tctttcactcttggctagttatgca--tacagt-----cactctgcttaaagctgattctgaca---tggtgtttcctgtgatactttgttagAGGGAAATAATGGATACATTTTGATTACTGCAAATGGTGGTATCAACCAGCAGCGAGTAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataaaagttcaagctgatactcatagcctgctctcttgtactgtactccaatagAGGGAAAAAATGGATACATTTTGGTTACTGCAAATGGTGGGATCAATCAACAACGAGTAGCT
agctgat putative branch site (score: 4)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgtggttgaaatttaacaattttttatattgtgtatgtttataagtgtgcaactacaaaaggaaaataaaagttcaagctgatactcatagcctgctctcttgtactgtactccaatagAGGGAAAAAATGGATACATTTTGGTTACTGCAAATGGTGGGATCAATCAACAACGAGTAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG