Sequence
atgc intronic sequence ATGC exonic sequence...aatcacatctctatttcaccatatatttctagtcatatttatgcatttcaataatgtatataataaattttgttttgttcccattttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTTGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
Basic information
species | Glycine max |
transcript | GLYMA05G34180.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g02884.1 (Oryza sativa), 3'ss of exon 4
------aatcacatctctatttcaccatatatttctagtcatatttatgcatttcaataatgtatataataaattttg-ttttgttcccattttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTTGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
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caggtcatttgcagccatat---acagaaagcaccaaatgatatctgtgtcttctcttataccatttatcatatattgatattactgcctctttgc----tgtgcagAAACTAATATTTGATAGACCTGAGCCTGGTGTAAGGAAAATTGTTCTTGCAACCAATTTGGCTGAAACAAGTATTACTATCAATGATGTAGTTTTTGTGG
upper sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 10
aatcacatctctatttcaccatatatttctagtcatatttatgcatttca-ataatgtatataataaattttgttttgttcccattttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTTGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
| | || | | | || | || | || | | | ||||| |||| ||| |||| | | | || |||||| || |||||||| || ||||| || || |||||||| |||||||| || || ||||||| ||||||||||| ||||| ||||| || ||||| |
-gttggttagggatggaagagtgcagtttttttctttctttttctcctggtgtaatgaatatgcattattctgttgacacttttgtccactttttgtgcagAAATTAATATTTGATAAGCCTGAGCCTGGAGTAAGGAAAATAGTTCTTGCCACGAATTTGGCTGAAACTAGTATTACTATCAACGATGTAGTTTTTGTTG
upper sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G48650.1 (Arabidopsis thaliana), 3'ss of exon 10
--------------------------aatcacatct-ctatttcaccatatatttctagtc--atatttatgcatttcaataatgtatataataaattttgttt-tgttcccattttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTTGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
| | | | | | || || || || | | | |||||| ||| | | | || || || | |||| |||||| | |||| |||||| |||| ||||| | ||| || ||| | |||||||| || || || || || ||||||||||| ||||| ||||||||||||||||| | ||||
gtaaatctagtgtccattatttgcctatctatgcatacaagtacaacacatgttataattttaaaatttatcttattctgctcttgctgtcattttttatgatgatgttttcatttta--ttttctacagAGGCTGATTTTTGATAGACCTCCAGAAGGAATTAGGAAAATAGTACTGGCCACCAATATGGCTGAGACAAGTATCACCATCAATGATGTTGTATATGTGA
upper sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 9
aatcacatctctatttcaccatatatttctagtcatatttatgcatttcaataatgtatataataaattttgttttgttc-ccattttgc-----ctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTTGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
| | | || | |||||| | | | | | || |||||| | | | ||||||| | |||||||| | |||||||||| |||||||| || || |||| || || |||||||| |||||||| || |||||||||||||||||||| ||||| |||||||| || |||||||
---gaaacttgctttaaattatatatgatttctaacttggttaaat---ggtaatgtttgtttccacccttgttttcctgaccattttgaactggtttgcatgcagAGGTTAATATTTGATAAGCCGGAAGATGGAGTAAGGAAAATAGTTCTTGCTACCAACATGGCTGAGACTAGTATCACCATTAATGATGTGGTTTTTGTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcaataatgtatataataaattttgttttgttcccattttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTTGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
ttttgttttgttccca CT-rich tract
ataatgtatataataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatcacatctctatttcaccatatatttctagtcatatttatgcatttcaataatgtatataataaattttgttttgttcccattttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTTGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
aatcaca
- - - - - - - -tcaccat
- - - - - - - - - - - - - - - - - - - - - gcatttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgcc