Sequence
atgc intronic sequence ATGC exonic sequence...tgtttttttggccattcttacaccaccttgcttggtggggatattgcacctttctgcatacatataggatctctgatataaatgaattttataattacagCTACGGAAAATGCTTGATCTCCTTGTTCATGCATCCCAATGTCGTTCTGCACATTGCCAATATCCCAATTGTCGCAAGGTGAAGGGGCTTTTCCGCCATG
Basic information
species | Glycine max |
transcript | GLYMA08G24290.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 17
lower sequence: AT1G79000.1 (Arabidopsis thaliana), 3'ss of exon 16
-----tgtttttttggccattcttacacc--accttgcttgg-tggggatattgcacctt-tctgcatacatataggatctctgatataaatgaattttataatt--acagCTACGGAAAATGCTTGATCTCCTTGTTCATGCATCCCAATGTCGTTCTGCACATTGCCAATATCCCAATTGTCGCAAGGTGAAGGGGCTTTTCCGCCATG
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gtatacactatactgttcctttctaaaactgatggtgcttctctcttggtcctgaaatttgtatgcaaata-gtaacattttttttttgttctcttcttttggttttgcagCTTAGGAAAATGCTCGATCTTCTGGTACATGCATCACAATGTCGTTCGGCACATTGTCAATATCCGAATTGCCGGAAAGTGAAAGGGCTATTCCGACATG
upper sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 17
lower sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 15
-----------------------------------------------------------------------------------tgtttttttggccattcttacaccaccttgcttggtggggatattgcacctttctgcatacatataggat-ctctgatataaatgaattttataattacagCTACGGAAAATGCTTGATCTCCTTGTTCATGCATCCCAATGTCGTTCTGCACATTGCCAATATCCCAATTGTCGCAAGGTGAAGGGGCTTTTCCGCCATG
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gtactgtaatattcagttttttgttgttgttgttgtgcatggtagatcctcttgaaaaaactgcctcttcttctcttgctttaggcttcttctgatttgagaaaacaattgggctttgttaggtcat-atagctcccacaatgtatctgaagtgctaaagttttcatttatctaaaatatgcagCTCAGGAAAATGCTCGATCTTCTGGTGCATGCGTCGCAATGCCGTTCTCCAGTTTGTCTATATCCCAACTGCCGCAAAGTGAAGGGGCTATTCCGACATG
upper sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 14
-----tgtttttttggccattcttacaccac-cttgcttggtggggatattg-cacctttctgcatacatataggatctctgatataaatgaattttataattacagCTACGGAAAATGCTTGATCTCCTTGTTCATGCATCCCAATGTCGTTCTGCACATTGCCAATATCCCAATTGTCGCAAGGTGAAGGGGCTTTTCCGCCATG
| ||| |||| | | | ||| | | || ||||| || |||||| || | | || | || ||| | | |||||| | |||||||||||||| || || |||||||| ||||| |||||| ||||||| |||||||| || |||||||| |||||||| |||||||||||||
agagaaatgaacatgggggatcttgctctgtgcatgcattattggaatattatcatctttctacaaaggcctgacattatttggtta-------tttgacactgcagCTAAGAAAAATGCTTGATCTACTGGTGCATGCATCTCAATGCCGTTCTCCACATTGTCAATATCCAAACTGTCGCAAAGTGAAGGGCCTTTTCCGCCATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcacctttctgcatacatataggatctctgatataaatgaattttataattacagCTACGGAAAATGCTTGATCTCCTTGTTCATGCATCCCAATGTCGTTCTGCACATTGCCAATATCCCAATTGTCGCAAGGTGAAGGGGCTTTTCCGCCATG
ctctgat putative branch site (score: 4)
atctctgatataaatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttttttggccattcttacaccaccttgcttggtggggatattgcacctttctgcatacatataggatctctgatataaatgaattttataattacagCTACGGAAAATGCTTGATCTCCTTGTTCATGCATCCCAATGTCGTTCTGCACATTGCCAATATCCCAATTGTCGCAAGGTGAAGGGGCTTTTCCGCCATG
- - - - - -ccattct
- - - - - - - - - - - ccacctt
- - - - - - - - - - - - - - - - tggtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gcataca