Sequence
atgc intronic sequence ATGC exonic sequencegtttgtaaatacgtttatactaggaaaccaaacataaaatttcagtcaagtttaatgagttgttttgataccaatcatatattaaaaaacaacttttcaagtaataaactatgcatgttgataatgtcacataattatcttatctgcattgtcaacagGTGAAAATTTTGCATTGATGTCTGGCACAAGCATGGCTGCACCACATGTTGCTGGTCTTGCTGCACTAATTAGGCAAAAGTTCCCCAATTTCAGTCCTGC
Basic information
species | Glycine max |
transcript | GLYMA15G21920.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G21920.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g56320.1 (Oryza sativa), 3'ss of exon 8
gtttgtaaatacgtttatactaggaaaccaaacataaaatttcagtcaagtttaatgagttgttttgataccaatcatatattaa-aaaacaacttttcaagtaataaactatgcatgttgataatgtcacataattatcttatctgca--ttgtcaac-agGTGAAAATTTTGCATTGATGTCTGGCACAAGCATGGCTGCACCACATGTTGCTGGTCTTGCTGCACTAATTAGGCAAAAGTTCCCCAATTTCAGTCCTGC
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-----------------------------------------------------------ccaacctataac--atcttctattaataaatttgcttatataataatttttttcttacatagatta-attgaataattatgttgtttttgacttactgtctagGTGAAAGTTTTGCAATAATTTCCGGTACAAGTATGGCTGCACCACACGTTGCTGGGCTTGCTGCTCTAGTCAAGCAGAAGTTCCCTTATTTTAGCCCTGC
upper sequence: GLYMA15G21920.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G837606_T01 (Zea mays), 3'ss of exon 2
gtttgtaaatacgtttatactaggaaaccaaacataaaatttcagtcaagtttaatgagttgttttgataccaatcatatattaaaaaacaacttttcaagtaataaactatgcatgttgataatgtcacataattatcttatctgcattgtcaacagGTGAAAATTTTGCATTGATGTCTGGCACAAGCATGGCTGCACCACATGTTGCTGGTCTTGCTGCACTAATTAGGCAAAAGTTCCCCAATTTCAGTCCTGC
| | || | | | | | | |||| | || | | || | | | | || ||||| || | | | || | |||| |||||||| ||| || || | ||||||||||| ||||||||||| ||||||||||| || ||||| ||||| | ||| ||||| || ||| || || ||
------------------------------------------ttgcaatattcagttttctcaaacaaaattgtctttgcattagagtccagcactacagatttt---cctttcac--tgatagaatc-------tgtgaaaactcccttgt----agGTGAAAGTTTCGCGATGCTCTCTGGCACAAGTATGGCTGCACCCCATGTTGCTGGCCTGGCTGCTCTAATCAAGCAGAAGTTTCCTTCTTTTAGCCCAGC
upper sequence: GLYMA15G21920.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0092g00170.t01 (Vitis vinifera), 3'ss of exon 8
gtttgtaaatacgtttatactaggaaaccaaacataaaatttcagtcaagtttaatgagttgttttgataccaatcatatattaaaaaacaacttttcaagtaataaacta-tgcatgttgataatg--tcacataattatcttatctgcattgtcaacagGTGAAAATTTTGCATTGATGTCTGGCACAAGCATGGCTGCACCACATGTTGCTGGTCTTGCTGCACTAATTAGGCAAAAGTTCCCCAATTTCAGTCCTGC
|| | | | || | ||| |||| || || || || | | ||| | ||| | |||||| ||||| | ||| | |||| || || |||||| |||||||||| |||||||||||||| || |||||| |||| ||||| ||| | |||| ||| ||||| ||||| |||||||| |
----------------------------------------------------gtatacacaaactaaaaagtg-caatgtgg-gtggcacacctttccatgtgatctaccactacattcaaaacatggattggctaattaacttat--gaattattt-cagGAGAGAACTTTGCAATGATGTCTGGGACAAGCATGGCTGCTCCTCATGTTTCTGGGCTTGCAGCATTGATTAAGCAGAAGTTTCCCAAGTTCAGTCCGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaactatgcatgttgataatgtcacataattatcttatctgcattgtcaacagGTGAAAATTTTGCATTGATGTCTGGCACAAGCATGGCTGCACCACATGTTGCTGGTCTTGCTGCACTAATTAGGCAAAAGTTCCCCAATTTCAGTCCTGC
tgttgat putative branch site (score: 4)
acataattatcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtaaatacgtttatactaggaaaccaaacataaaatttcagtcaagtttaatgagttgttttgataccaatcatatattaaaaaacaacttttcaagtaataaactatgcatgttgataatgtcacataattatcttatctgcattgtcaacagGTGAAAATTTTGCATTGATGTCTGGCACAAGCATGGCTGCACCACATGTTGCTGGTCTTGCTGCACTAATTAGGCAAAAGTTCCCCAATTTCAGTCCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC