Sequence
atgc intronic sequence ATGC exonic sequence...tgctagttttctttcaactggtctttggtttctggtgtaatacttttttttttttttgcattgagtgcaatattcttaatttgttttttcaatgtcccagCTGAAACTGTAATATACAGAATCTATTATTACATTAATAGATCTGGAAATGGTCGTCTCACCCTGAGGGAGCTGAAGCGTGGAAACATAATTGATGCAAT
Basic information
| species | Glycine max |
| transcript | GLYMA10G30930.2 |
| intron # | 6 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os10g33680.1 (Oryza sativa), 3'ss of exon 6
tgctagttttc---tttcaactggtctttggtttctggtgtaatacttttttttttttttgcattgagtgcaatattcttaatttgttttttcaatgtcccagCTGAAACTGTAATATACAGAATCTATTATTACATTAATAGATCTGGAAATGGTCGTCTCACCCTGAGGGAGCTGAAGCGTGGAAACATAATTGATGCAAT
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tgaggattctacgattggacctggtcaatgactattggt--agtgatttgctggatgcctgcatctcattca-tctgctaatcgtttattatgtaattttcagCTGAGACTGTAATATACAGAATCTTTTATTCCATAAATAGAGCTGGAAATGGCCATCTTACCCTCAGAGAGCTAAAACGTGGGAATTTAATTGCTGCGAT
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G148323_T01 (Zea mays), 3'ss of exon 6
---------tgctagttttctttcaactggtctttggtttctggtgtaatacttttttttttttttgcattgagtgcaatattcttaatttgttttttcaatgtcccagCTGAAACTGTAATATACAGAATCTATTATTACATTAATAGATCTGGAAATGGTCGTCTCACCCTGAGGGAGCTGAAGCGTGGAAACATAATTGATGCAAT
||| ||| ||| | | |||| | || | | | ||| || | | ||||| ||| | |||| | ||| | ||| |||| || ||||||||||||||||||| ||| | ||| ||||||||||| ||||||| ||| || ||||| ||||| || |||||||| |||||| |||| |
aactcaactatctattttgttttaagatcagatttgctgaatgttttga-actgttgctaatgtttgct----gtgtcacattcatttcttgatgtttt----cttcagCGGAGACTGTAATATACAGAATCTTTTACTCCATAAATAGATCTGGGAATGGTCATCTGACTCTGAGAGAGCTCAAACGTGGAAATTTAATTGCTGCACT
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G54450.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------------------------------------------------------tgcta-gttttctttcaactggtctttggtttctggtgtaatactttttttttt---ttttgcattgagtgcaatattcttaatttgttttttcaatgtcc-cagCTGAAACTGTAATATACAGAATCTATTATTACATTAATAGATCTGGAAATGGTCGTCTCACCCTGAGGGAGCTGAAGCGTGGAAACATAATTGATGCAAT
| || |||| | || | | | | | || || | | | || | || | || | | | ||||| || | ||||||||||||||||||||||||| ||||| ||||| ||||| ||||||||| | ||| ||| |||| ||||| ||||| ||||| || |||| |||||
gttagtgcaagaatatgaagtgatctttagttcggtttgtttttttacagttttgctgaaatagtaagatatgtttacattagatagaacaaaaatctaaaatgagatgtggtgaatgtaaagttgagtatatgatccattgtaatgtatttgaaaaacttttggcaacagCTGAAACTGTAATATACAGAATATATTACTACATAAATAGGAGTGGAAATGGGCATCTTACCTTGAGAGAGCTTAAGCGAGGAAATTTAGTTGACGCAAT
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G28850.1 (Arabidopsis thaliana), 3'ss of exon 5
tgctagttttctttcaactggtctttggtttctggtgtaatacttttttttttttttgcattgagtgcaatattct----taatttgttttttcaatgtcccagCTGAAACTGTAATATACAGAATCTATTATTACATTAATAGATCTGGAAATGGTCGTCTCACCCTGAGGGAGCTGAAGCGTGGAAACATAATTGATGCAAT
| | |||| ||| || | || ||| | || ||| | || || |||||| |||| ||| ||||||||||||| | |||||||| | ||| ||||| ||||||||||| |||||||| | || | |||||||| || || |||||| |||||||||| ||
---gaaaaaaaaaaaatctggagcttgtttatgaatcatgtattttgatgaaacagctgatgctatgctacatgctgatacaatttgcatttt-gatgaaacagCTGAAACTGTCACCTACAGAATATTTTACTACATAAATAGATCTGGCAATGGTCGAATTACATTTAGGGAGCTTAAACGGGGAAACTTAATTGATGCTAT
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G28900.1 (Arabidopsis thaliana), 3'ss of exon 6
tgctagttttctttcaactggtctttggtttctggtgtaatacttttttttttttttgcattgagtgcaatattct-taatttgttttttcaatgtcccagCTGAAACTGTAATATACAGAATCTATTATTACATTAATAGATCTGGAAATGGTCGTCTCACCCTGAGGGAGCTGAAGCGTGGAAACATAATTGATGCAAT
| | | | |||| |||| | ||| | | ||||| | || | | | | | ||||||| |||| || ||||||||||||| | ||| |||| | ||||||||| ||||||||||| |||||||| | || | |||||||| || || |||||| |||||||||| ||
tctggagtccatattctttggtatttgctgctaccggtatcaaagctaaatttttaaggatgcttttctgtctgatacaatttgtatttt-gctgaaacagCTGAAACTGTCACCTACCGAATATTTTATTACATAAATAGATCTGGCAATGGTCGAATTACATTTAGGGAGCTTAAACGGGGAAACTTAATTGATGCTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttttttttgcattgagtgcaatattcttaatttgttttttcaatgtcccagCTGAAACTGTAATATACAGAATCTATTATTACATTAATAGATCTGGAAATGGTCGTCTCACCCTGAGGGAGCTGAAGCGTGGAAACATAATTGATGCAAT
tcttaat putative branch site (score: 3)
ttttttca putative PPT
aatattcttaatttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctagttttctttcaactggtctttggtttctggtgtaatacttttttttttttttgcattgagtgcaatattcttaatttgttttttcaatgtcccagCTGAAACTGTAATATACAGAATCTATTATTACATTAATAGATCTGGAAATGGTCGTCTCACCCTGAGGGAGCTGAAGCGTGGAAACATAATTGATGCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
