Sequence
atgc intronic sequence ATGC exonic sequence...catcctctacatgacttttaagacaatttttataaaagtcgataaacttatcatatatgacacgatttgtgattagatgatattgtaatgcacatcacagGTTGAGGTGTTGAGCTGCATACGGCATCCAAACATGGTTCTCCTCCTAGGAGCGTGTCCAGAATACGGGTGTCTAGTGTATGAGTACATGGCAAATGGAA
Basic information
species | Glycine max |
transcript | GLYMA06G08210.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G08210.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g12660.1 (Oryza sativa), 3'ss of exon 7
------catcctctacatgacttttaagacaatttttataaa--agtcgataaacttatcatatatgacacgatttgtgattagatgatattgtaatgcacatcacagGTTGAGGTGTTGAGCTGCATACGGCATCCAAACATGGTTCTCCTCCTAGGAGCGTGTCCAGAATACGGGTGTCTAGTGTATGAGTACATGGCAAATGGAA
|| || | | |||| ||| | | | | | ||||||| |||| | | |||| ||| | || |||| | || | | || ||| | |||||||| |||||||||||||||| || || || ||||| || || || |||||||| || ||||| |||||||||| | || |
tttaaccaaagtcaaaacgactcataatctgaaacagagggagtaattaataaactgcatggtgatga-ataagttgtaatttatttattttgttgttca-------gATAGAAGTGCTTAGCTGCATGAGGCATCCAAACATGGTGCTGCTGCTGGGAGCATGCCCGGAGTACGGGTGCCTGGTGTACGAGTACATGGACTACGGCA
upper sequence: GLYMA06G08210.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G24370.1 (Arabidopsis thaliana), 3'ss of exon 8
catcctctacatgacttttaagacaatttttataaaagtcg-ataaacttatcatatatgacacgatttgtgattagatgatattgtaatgcacatcacagGTTGAGGTGTTGAGCTGCATACGGCATCCAAACATGGTTCTCCTCCTAGGAGCGTGTCCAGAATACGGGTGTCTAGTGTATGAGTACATGGCAAATGGAA
| | |||| || || |||||| || | || || | | | | || | | | | | | | | | | ||||||| ||||| ||||||||||| ||||||| ||||||||||| || || || || ||||| |||| ||| ||| |||| || |||| |||||| ||||| |
----------------gtaatgacatcttgtaataaagtcacatcagtttctccttattcatttgtttctttctcattttagagttttg---aaaacacagGTCGAGGTATTGAGCTGCATTAGGCATCCGAACATGGTTCTACTTCTTGGGGCTTGTCCGGAATGCGGATGTTTAGTCTACGAGTTCATGGCTAATGGGA
upper sequence: GLYMA06G08210.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 8
catcctctacatgacttttaagacaatttttataa--aagtcgataaacttatcata--tatgacacgatttgtga--ttagatg-atattgtaatgcacatcacagGTTGAGGTGTTGAGCTGCATACGGCATCCAAACATGGTTCTCCTCCTAGGAGCGTGTCCAGAATACGGGTGTCTAGTGTATGAGTACATGGCAAATGGAA
| | || | || ||| | | | || || |||| | | | | || ||| | | | || || || | | | |||||||| || | ||||||||||| ||||| ||||||||||||||||| ||||| || ||||| || || || | || |||||||||||||| ||||| |
------attccaagctatgaatttgattctgaacagcaaactgagcttcttactagaactgtttcagaattagcaaggctgtatatatgtttctttctgc-ttgcagGTTGAAGTTCTCAGCTGCATACGCCATCCTAACATGGTTCTCCTCCTGGGAGCCTGCCCAGAGTATGGATGCTTGGTCTATGAGTACATGGCTAATGGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttatcatatatgacacgatttgtgattagatgatattgtaatgcacatcacagGTTGAGGTGTTGAGCTGCATACGGCATCCAAACATGGTTCTCCTCCTAGGAGCGTGTCCAGAATACGGGTGTCTAGTGTATGAGTACATGGCAAATGGAA
atattgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catcctctacatgacttttaagacaatttttataaaagtcgataaacttatcatatatgacacgatttgtgattagatgatattgtaatgcacatcacagGTTGAGGTGTTGAGCTGCATACGGCATCCAAACATGGTTCTCCTCCTAGGAGCGTGTCCAGAATACGGGTGTCTAGTGTATGAGTACATGGCAAATGGAA
catcctc
- - - - acatgac
- - - - - - - - - - - - - - - - - - - - gataaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacacg