Sequence
atgc intronic sequence ATGC exonic sequencegtaagttctgaatttccccactgatttatgggatgtttcaaatatatttctgttgctgatttccattttgaaacacaaaatttcaatgtttttgtatgcataatgcatgtatatgatgatgagtttcaacaagtaatattttgatggatgttacagGATTATACTCCCTATTCTTGTCAAAAGATTATTTCATCAACTCCTGGAGCTGGGGATCATCATGGTTGCCCCTATCGACATTTCAG
Basic information
species | Glycine max |
transcript | GLYMA05G28150.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G28150.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os07g22400.2 (Oryza sativa), 3'ss of exon 15
gtaagttctgaatttccccactgatttatgggatgtttcaaatatatttctgttgctgatttccattttgaaacacaaaatttcaatgtttttgtatgcataatgcatgtatatgatgatgagtttcaacaagtaatattttgatggatgttacagGATTATACTCCCTATTCTTGTCAAAAGATTATTTCATCAACTCCTGGAGCTGGGGATCATCATGGTTGCCCCTATCGACATTTCAG
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----------------------------------------------------------------------------gtaagccccttgttct---atttttgttgcttgtttg-gataatcaacttattcatctctcagacaaatggctcctccagGATTACACTCCGTATTCATGTCAAAAGATTATCTCTGCAACACCTGGTGTTGGTGATCACCATGGTTGCCCTTATCGACATTTTGG
upper sequence: GLYMA05G28150.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G044317_T02 (Zea mays), 3'ss of exon 15
gtaagttctgaatttccccactgatttatgggatgtttcaaatatatttctgttgctgatttccattttgaaacacaaaatttcaatgtttttgtatgcataatgcatgtatatgatgatgagtttcaacaagtaatattt----tgatggatgttac---agGATTATACTCCCTATTCTTGTCAAAAGATTATTTCATCAACTCCTGGAGCTGGGGATCATCATGGTTGCCCCTATCGACATTTCAG
||| | | | ||||| || ||| | | ||||||| || || | | ||| | | ||||||| ||||| ||||| ||||||||||| ||||| |||| ||||| | ||| ||||| ||||| || || | ||||||||| |
---------------------------------------------------------------------------------------------gtaagtctcctccatgtgtaacttgaaattgtgccacaagtattacttactctcacacatgctgctccagGATTACACTCCATATTCATGTCAAAAGATCATTTCTGCAACACCTGGCGTTGGAGATCACCATGGATGTCCGTTTCGACATTTTGG
upper sequence: GLYMA05G28150.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G044317_T03 (Zea mays), 3'ss of exon 15
gtaagttctgaatttccccactgatttatgggatgtttcaaatatatttctgttgctgatttccattttgaaacacaaaatttcaatgtttttgtatgcataatgcatgtatatgatgatgagtttcaacaagtaatattt----tgatggatgttac---agGATTATACTCCCTATTCTTGTCAAAAGATTATTTCATCAACTCCTGGAGCTGGGGATCATCATGGTTGCCCCTATCGACATTTCAG--------------
||| | | | ||||| || ||| | | ||||||| || || | | ||| | | ||||||| ||||| ||||| ||||||||||| ||||| |||| ||||| | ||| ||||| ||||| || || | ||||||||| |
---------------------------------------------------------------------------------------------gtaagtctcctccatgtgtaacttgaaattgtgccacaagtattacttactctcacacatgctgctccagGATTACACTCCATATTCATGTCAAAAGATCATTTCTGCAACACCTGGCGTTGGAGATCACCATGGATGTCCGTTTCGACATTTTGGGTACAATTTGACCC
upper sequence: GLYMA05G28150.1 (Glycine max), 3'ss of exon 15
lower sequence: AT1G67320.2 (Arabidopsis thaliana), 3'ss of exon 15
gtaagttctgaatttccccactgatttatgggatgtttcaaatatatttctgttgctgattt-ccattttgaaacacaaaatttcaatgtttttgtatgcataatgcatgtatatgatgatgagtttcaacaagtaatattttgatggatgttacagGATTATACTCCCTATTCTTGTCAAAAGATTATTTCATCAACTCCTGGAGCTGGGGATCATCATGGTTGCCCCTATCGACATTTCAG
|| || | |||| | | ||||||| || | | ||| || | |||| | || | || ||||| || ||| | || ||| || | || ||||||||||| || ||| ||||| |||||| || |||| ||||||| |||||||||||||| || ||||| ||||||||||||||
-------------------------------------gtaagtacctaactgtcctttctaggccatttttttcca-gagttctcatctcttatttatgt-cattgaaagtg-gcaatgatcagcttctgataccaa-attcacattgcaatttcagGATTATACCCCTTATGCTTGTTCAAAGATCATCACATCTGCTCCTGGTGCTGGGGATCATCACGGCTGCCCTTATCGACATTTCAG
upper sequence: GLYMA05G28150.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv05s0051g00930.t01 (Vitis vinifera), 3'ss of exon 15
gtaagttctgaatttccccactgatttatgggatgtttcaaatatatttctgttgctgatttccattttgaaacac--aaaatttcaatgtttttgtatgcataatgcatgtatatgatgatgagtttcaacaagtaatattttgatggatgttacagGATTATACTCCCTATTCTTGTCAAAAGATTATTTCATCAACTCCTGGAGCTGGGGATCATCATGGTTGCCCCTATCGACATTTCAG
| ||| | || || | |||| | || | | | || |||||||| | | | |||| || | | || | | || |||||||| || || |||||||||||||| |||||||||||||||||||| | || |||||||| |||||||| ||||||||||| ||
-----------------------------------------------------ctcacctttttacttaaaagtgcttaaaaataagatatgacttcctatatg-tgcatgtaaac--caacaacattca--aaacatttttgttttttcctttgcagGATTACACACCTTATTCTTGTCAAAAAATTATTTCATCAACTCCTGGTGTAGGCGATCATCACGGTTGCCCTTATCGACATTTTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgcatgtatatgatgatgagtttcaacaagtaatattttgatggatgttacagGATTATACTCCCTATTCTTGTCAAAAGATTATTTCATCAACTCCTGGAGCTGGGGATCATCATGGTTGCCCCTATCGACATTTCAG
ttttgat putative branch site (score: 4)
aacaagtaatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttctgaatttccccactgatttatgggatgtttcaaatatatttctgttgctgatttccattttgaaacacaaaatttcaatgtttttgtatgcataatgcatgtatatgatgatgagtttcaacaagtaatattttgatggatgttacagGATTATACTCCCTATTCTTGTCAAAAGATTATTTCATCAACTCCTGGAGCTGGGGATCATCATGGTTGCCCCTATCGACATTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT