Sequence
atgc intronic sequence ATGC exonic sequence...ttttccaactccttgaacttgcattatctactgtgttctacagttctagtgtctcaacctcggtagactttggtgtctgactagttgaaatttgtttcagATTGCTGTTATGCTGATGTCACTAAAAGCAGGAAACCTTGGTTTGAATATGGTTGCTGCATGTCATGTTATACTTTTGGATCTTTGGTGGAATCCAACAA
Basic information
| species | Glycine max |
| transcript | GLYMA10G43430.1 |
| intron # | 10 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G43430.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os08g08220.1 (Oryza sativa), 3'ss of exon 9
-------ttttccaactcc--ttgaacttgcattatctactgtgttctac-agttctagtgtctcaacctcggtagactttggtgtctgactagttgaaatttgtt-tcagATTGCTGTTATGCTGATGTCACTAAAAGCAGGAAACCTTGGTTTGAATATGGTTGCTGCATGTCATGTTATACTTTTGGATCTTTGGTGGAATCCAACAA
||||| ||| | || | || || | | | || | || || ||| || | || || | | | | | | | | |||| | |||||| | |||||||| |||||||| || |||||| | |||||||||||||| || ||||| || || | |||||||||||||||||
gtccctattttctgtttccactctcttttttactaccttgtttctcttattactttcagccattca--ttcagcag---ttattctgaaaggaatccttttgtatcctcagGTCAGGGTTATGATCATGTCACTGAAAGCAGGTAATCTTGGTCTCAATATGGTTGCTGCTTGCCATGTAATTCTCCTTGATCTTTGGTGGAATCCTTATG
upper sequence: GLYMA10G43430.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G50410.1 (Arabidopsis thaliana), 3'ss of exon 9
ttttccaactccttgaacttgcattatctactgtgttctacagttctagtgtctcaacctcggtagactttggtgtctgactagttgaaattt--gtttcagATTGCT----GTTATGCTGATGTCACTAAAAGCAGGAAACCTTGGTTTGAATATGGTTGCTGCATGTCATGTTATACTTTTGGATCTTTGGTGGAATCCAACAA
| | | || | | || | | | | | ||| | ||| | | || | || | || ||| || | | | | | || ||| | ||||| ||||||| ||||| ||||| |||||||| |||||||||||||||| || ||| | ||||| |||||||||||||| |
-------gtaagtcgtatgcatatctgaaatcattttttcctaaacaattttcttagtggtggtgta-tgtgttccctcctttttttgtttttttgtcttaaacagGTAAAAGTGATGATAATGTCTTTAAAAGCTGGAAATCTTGGGCTGAATATGATTGCTGCATGTCATGTCATTCTTCTTGATCTATGGTGGAATCCAACTA
upper sequence: GLYMA10G43430.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G20010.1 (Arabidopsis thaliana), 3'ss of exon 8
---------------------------ttttccaactccttgaacttgca--ttatctactgtgttctacagttctagtgtctcaacctcggtagactttggtgtctgactagttgaaatttgtttcagATTGCTGTTATGCTGATGTCACTAAAAGCAGGAAACCTTGGTTTGAATATGGTTGCTGCATGTCATGTTATACTTTTGGATCTTTGGTGGAATCCAACAA
||||| || | | ||| || ||| | | | | | | || | | | | || | | | | ||| || | | || | || ||||||||||| |||||||| ||||||||||| |||||||||| ||||||||||||||||| || ||||||||||||||||||||||| |
gtaagtgatgtaaatatcttagatatgttttctaaaacaatatactaatcgtttctctgaaatatggaatgttcatggagtattgatcctgaagctctctaaaagcgcaaaa----aaaattttattagGTAAAGGTGATGCTGATGTCGCTAAAAGCTGGAAACCTTGGGCTGAATATGGTAGCTGCATGTCATGTTATTCTCTTGGATCTTTGGTGGAATCCAACTA
upper sequence: GLYMA10G43430.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G16600.1 (Arabidopsis thaliana), 3'ss of exon 7
--------------------------------------------------------------------------------------------ttttccaactccttgaacttgcat-tatctactgtgttctacagttctagtgtctcaacctcggtagactttggtgtctgactagttgaaatttgtttcagATTGCTGTTATGCTGATGTCACTAAAAGCAGGAAACCTTGGTTTGAATATGGTTGCTGCATGTCATGTTATACTTTTGGATCTTTGGTGGAATCCAACAA----
| || || | | || || | | |||| | || | || ||||| | || || | ||| | | | ||| | | | | | || ||| ||||||| || ||||| ||||||||||| ||||||||||| |||||| ||||||| || || |||| || ||||||||||||||||
gcttgactttgttgagcattcttttgtccaaaaccgcataaaattcagaagattagatggtacaatgtctctagtagcaagagacatagctgtaaaagaattcaacaatgatccagacatattatatgttttgcattcaaagaatctcattttt-----acgtttctcaaagacaaat-gtaatgattatgaaacagGTGCGATGTTGATGTCTCTTAAAGCTGGAAACCTTGGATTGAATATGGTAGCTGCAAGTCATGTCATTCTACTGGACCTATGGTGGAATCCAACAACAGA
upper sequence: GLYMA10G43430.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv10s0071g00780.t01 (Vitis vinifera), 3'ss of exon 8
ttttccaactccttgaacttgcattatctactgt-gttctacagttctagtgtctcaacctcggtagactttggtgtctgactagttgaaatttgtttcagATTGCTGTTATGCTGATGTCACTAAAAGCAGGAAACCTTGGTTTGAATATGGTTGCTGCATGTCATGTTATACTTTTGGATCTTTGGTGGAATCCAACAA
| | | |||| | | | | || ||| | | || | | || ||| | | | || | | | | || || ||| | | || ||||||||||| ||||||||||||||||||||||| ||||||||||| || | || |||||| |||||||||||||||||||||||||| |
tggtatcaaaaattgatgaggaaatgcatgcttcagttttgctttttctggctttctaccctaattt-caattgtactaaatgaatgaagtttcattgcagGTAACAGTCATGCTGATGTCCCTAAAAGCAGGAAACCTTGGTTTAAATATGGTTGCGGCTTCTCTTGTTATCCTTTTGGATCTTTGGTGGAATCCAACTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctagtgtctcaacctcggtagactttggtgtctgactagttgaaatttgtttcagATTGCTGTTATGCTGATGTCACTAAAAGCAGGAAACCTTGGTTTGAATATGGTTGCTGCATGTCATGTTATACTTTTGGATCTTTGGTGGAATCCAACAA
gtctgac putative branch site (score: 3)
tttgtttc putative PPT
aaatttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttccaactccttgaacttgcattatctactgtgttctacagttctagtgtctcaacctcggtagactttggtgtctgactagttgaaatttgtttcagATTGCTGTTATGCTGATGTCACTAAAAGCAGGAAACCTTGGTTTGAATATGGTTGCTGCATGTCATGTTATACTTTTGGATCTTTGGTGGAATCCAACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - ccaactc
- - - - - -cttgaac
- - - - - - - - - -tgcatta
- - - - - - - - - - - - - - - -tgtgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - ctcaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgtc
