Sequence
atgc intronic sequence ATGC exonic sequence...taatggaatagttcagccttttgttaggctcttaactttatcttataaaacaataaatttctagctcactcagtctccttgcatgaatttgaacttgcagCTTGGTGAATTTTTTGACACCTGCATCTGGCCTGCAAGGATACTGGGATCCCTATCCTATCGATATGGAGTTTCGACCACCCTGCATGGTACTATCAACC
Basic information
species | Glycine max |
transcript | GLYMA14G23860.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G23860.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os10g41780.1 (Oryza sativa), 3'ss of exon 7
---------ta-atggaatagttcagccttttgttaggctcttaactttatcttataaaacaata----------aatttctagctcactcagtctccttgcatgaatttgaacttgcagCTTGGTGAATTTTTTGACACCTGCATCTGGCCTGCAAGGATACTGGGATCCCTATCCTATCGATATGGAGTTTCGACCACCCTGCATGGTACTATCAACC
|| || | | ||||| | || | || || ||| | | ||| ||| ||| ||| | ||| | || | || | | |||||||||||| || ||||||||| ||||||| || ||||||||||||||||| || || ||||| ||||| ||||||||||| |||||||| | ||||||
gtatttacatacatatattttcacagccatgtggaattcttttttttttttttagaaaatggatagccatgtggaaatgtcttcagaaatcatcatgctgatgctatgttcatttcccagCTTGGTGAAGTTCTTGACACCTTCATCTGGGCTTCAAGGATACTGGGATCCATACCCGATCGACATGGAATTTCGACCACCATGCATGGTGTTGTCAACC
upper sequence: GLYMA14G23860.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os10g41760.1 (Oryza sativa), 3'ss of exon 7
taatggaatagttcagccttttgttaggctcttaactttatcttataaaacaat-aaatttctagctcactcagtctccttgcatgaatttgaacttg--cagCTTGGTGAATTTTTTGACACCTGCATCTGGCCTGCAAGGATACTGGGATCCCTATCCTATCGATATGGAGTTTCGACCACCCTGCATGGTACTATCAACC
| ||| || | | |||| | || | ||| || | | ||| | || | || | ||| |||||||||||| || ||||||||||||||||| || ||||| ||||||||||| || || ||||| |||||||||||||| || |||||||| | ||||||
---------------gtatttacataca-tatcaactaaggacaactggccattgaaaatttttcacaaatcatcatgctgatgctatattcatctttgtcagCTTGGTGAAGTTCTTGACACCTGCATCTGGGCTCCAAGGGTACTGGGATCCTTACCCCATCGACATGGAGTTTCGACCGCCATGCATGGTCTTGTCAACC
upper sequence: GLYMA14G23860.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 7
taatggaatagttcagccttttgttaggctc-ttaactttatcttataaaacaataaatttctagc-tcactcagtctccttgcatgaatttgaacttg-cagCTTGGTGAATTTTTTGACACCTGCATCTGGCCTGCAAGGATACTGGGATCCCTATCCTATCGATATGGAGTTTCGACCACCCTGCATGGTACTATCAACC
|| | | | || | || | || || || | || | | | || |||| | || | ||| || ||| |||||||| || || |||||||| ||||| || ||||| ||||||||||| || || ||||| |||||||| ||||| || || ||||| | || |||
-------gta-tgtacctttgcatctcacttgtgaaaactaactgacgaatatacacttccataatatcaccatggtggctgatgtcgtgttgtttctgtcagTTTGGTGAAGTTCTTAACACCTGCGTCTGGGCTCCAAGGGTACTGGGATCCTTACCCGATCGACATGGAGTTCCGACCGCCATGTATGGTCTTGTCGACC
upper sequence: GLYMA14G23860.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G44446.2 (Arabidopsis thaliana), 3'ss of exon 7
taatggaatagttcagccttttgttaggctcttaactttatcttataaaacaataaatttctagctcactcagtctccttgcatgaatttgaacttgcagCTTGGTGAATTTTTTGACACCTGCATCTGGCCTGCAAGGATACTGGGATCCCTATCCTATCGATATGGAGTTTCGACCACCCTGCATGGTACTATCAACC
| | || | | ||| | ||| | | | | || || | | | | | || | || | |||| ||||| |||||||| ||||| |||||| | || || || ||||||||||||||||| ||||| ||||||||||| ||| |||||| || || || |||| ||
---------------gtttcttttaactctcattactctgttcagtgctaagatgaaact-tggttta---agctttct-----gtttttggtactgcagTTTGGTGAAGTTTTTAACACCTACCTCGGGTCTCCAAGGATACTGGGATCCATATCCAATCGATATGGAATTTAAACCACCGTGTATTGTTTTATCGACA
upper sequence: GLYMA14G23860.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 6
taatggaatagttcagccttttgttaggctcttaactttatcttataaaacaataaatttctag--ctcactcagtct---ccttgcatgaatttgaacttgcagCTTGGTGAATTTTTTGACACCTGCATCTGGCCTGCAAGGATACTGGGATCCCTATCCTATCGATATGGAGTTTCGACCACCCTGCATGGTACTATCAACC
||| | || | | ||| || | | | ||| || | || ||| | ||| || | | |||| | ||||||||| || || ||||||||||||||||| || |||||||||||||||||||| || || |||||||| ||||||||||| || ||||| || ||||||
----------------------gtttg-ttcctgtcaatattgcatttcatggttattttggagggcccatccagcttaagttttgtatta-tctgaattctcagCTTGGTAAAATTCTTGACACCTGCATCTGGACTCCAAGGATACTGGGATCCCTACCCCATAGATATGGAATTTCGACCACCTTGTATGGTGCTGTCAACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaaacaataaatttctagctcactcagtctccttgcatgaatttgaacttgcagCTTGGTGAATTTTTTGACACCTGCATCTGGCCTGCAAGGATACTGGGATCCCTATCCTATCGATATGGAGTTTCGACCACCCTGCATGGTACTATCAACC
agctcac putative branch site (score: 3)
aataaatttcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatggaatagttcagccttttgttaggctcttaactttatcttataaaacaataaatttctagctcactcagtctccttgcatgaatttgaacttgcagCTTGGTGAATTTTTTGACACCTGCATCTGGCCTGCAAGGATACTGGGATCCCTATCCTATCGATATGGAGTTTCGACCACCCTGCATGGTACTATCAACC
- - - - - - - - ccttttg
- - - - - - - - - - - - - - - - - - - - - - - aaaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcactca