Sequence
atgc intronic sequence ATGC exonic sequencegttagtaacttatgtcaatatatcagagcttaaattaatttcttttatccttttctttgatatgtatttgaagtattttatacgtacaaagtgctgatgataattttattataaacatgacacccttgtaatttatttcttcttatgggttgatgtatctgcgtgctattataacagGTTGCTGCCATGTTCAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCTGATCATCTCTCAAATGAAGGAAAAGATTTTGTTAGGAAATGTCTTCAGC
Basic information
species | Glycine max |
transcript | GLYMA10G37730.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G37730.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g47240.2 (Oryza sativa), 3'ss of exon 9
gttagtaacttatgtcaatatatcagagcttaaattaatttcttttatccttttctttgatatgtatttgaagtattttatacgtacaaagtgctgatgataattttattat-aaacatgacacccttgtaatttatttcttcttatgggttgatgtatctgcgtgctattataacagGTTGCTGCCATGTTCAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCTGATCATCTCTCAAATGAAGGAAAAGATTTTGTTAGGAAATGTCTTCAGC
|| | | ||| | | | | | | | || | || || | | || ||| || | | | | || ||| ||||||| ||||||||||| || |||||||||||||| ||| |||| || ||||| || ||| | ||| || || || | || || || || || |
----------------------------------------------------------------------------ttgaaatgtaaagacttccttcttttgactcgtaatgagacttggaagtttcaccgaagcaactttggcatgaac--atttcccctcttttctttcctgcagATTGCTGCAATGTTCAAGATCGGAAATAGCAAGGAACTTCCACCAATACCAGATCACCTTTCAGAGCCAGGCAAGGACTTCATCAGAAAGTGCCTGCAAC
upper sequence: GLYMA10G37730.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 8
gttagtaacttatgtcaatatatcagagcttaaattaatttcttttatccttttctttgatatgtatttgaagtattttatacgtacaaagtgctgatgataattttattataaacatgacacccttgtaatttatttcttcttatgggttgatgtatctgcgtgctattataacagGTTGCTGCCATGTTCAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCTGATCATCTCTCAAATGAAGGAAAAGATTTTGTTAGGAAATGTCTTCAGC
| | || | ||| || || ||| | | ||| | | || |||||||| || |||||| || || | ||| |||||||||| |||||||||||||| ||||| ||||| |||||| |||| |||||||| || ||| ||||||| || |||||||| ||| | || | || |
-------------------------------------------------------------------------aaatcta-aggtagaattcttacattccaatcgtgcaggttatttgatgtttctttg--ttctttcttctaattatgtgatgttcacatgttctggtctaa-agGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cccttgtaatttatttcttcttatgggttgatgtatctgcgtgctattataacagGTTGCTGCCATGTTCAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCTGATCATCTCTCAAATGAAGGAAAAGATTTTGTTAGGAAATGTCTTCAGC
ggttgat putative branch site (score: 5)
taatttatttcttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtaacttatgtcaatatatcagagcttaaattaatttcttttatccttttctttgatatgtatttgaagtattttatacgtacaaagtgctgatgataattttattataaacatgacacccttgtaatttatttcttcttatgggttgatgtatctgcgtgctattataacagGTTGCTGCCATGTTCAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCTGATCATCTCTCAAATGAAGGAAAAGATTTTGTTAGGAAATGTCTTCAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA