Sequence
atgc intronic sequence ATGC exonic sequence...tatagcgcatagtgttctatttaaagcataaggcacttgttatgttgtcatgataatgtgatgctgtacagctcaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
Basic information
species | Glycine max |
transcript | GLYMA16G19230.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g03760.2 (Oryza sativa), 3'ss of exon 11
--tatagcgcatagtg-ttctatttaaagcataaggcacttgttatgttgtcatgataatgtgatgctgtacagctcaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
| | | | | || ||||| | | | | | || || | || | | || || | || | | | | ||| ||||||||| |||||||| ||||||| ||||| || ||||| |||||||||||||| ||||| || ||||||||||| || | ||||| || ||||||||
tttgttggtttcatcaaccttgcttcctccataacatatgcat-acctgctgattatctgttaattttctcca-ctaagaggccatctaaaat-cttttgcagTGTGATTCAGTTCTGTGCCACAGCTTTTGCTTATTATGCGCAAGCAACTGCAGCTCAGGAGATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAG
upper sequence: GLYMA16G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G012284_T01 (Zea mays), 3'ss of exon 9
tatagcgcatagtgttctatttaaagcataaggcacttgttatg-ttgtcatgataatgtgatgctgtacagctcaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
|| | |||||| | | ||| | | ||| | ||| | | | | || ||| | || | | | || | | ||||||||| |||||||| |||| || ||||||||||| || |||||||||||||| || || |||||||||||||||||| | || ||||| ||||||||
catgagtattgactgcctatttttgtcg-acttcacatttcatgatagtcctctatccctcttaatctaattatcatatttttctgctattctatgtgcagTGTGATTCAGTTCTGTGCCACGGCTTTTGCCTACTACGCACAAGCAACTGCAGCTCAAGAGATATTTGGCCACACTTTGCAATCCCTTCGTGGAATTAAG
upper sequence: GLYMA16G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM5G871262_T02 (Zea mays), 3'ss of exon 11
tatagcgcatagtgttctatttaaagcataaggcacttgttatgttgtcatgataatgtgatgctgtacagctcaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
| | | || | ||| | | | || || || | | | | | || || | || | || || | | ||||||||| |||||||| |||| || |||||||| ||||| ||||||||||| || || || || ||||||||||| ||| | || ||||| ||||||||
tttgattggtttatttggctgctgagctttgtcttcgtatttcgtgatcgaaaaatcatcttaatctaactaccatacttttcctgccatatgtgtgcagTGTGATTCAGTTCTGTGCCACGGCTTTTGCCTATTATGCACAAGCAACTGCTGCTCAAGAGATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAG
upper sequence: GLYMA16G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 3'ss of exon 11
-tatagcgcatagtgttc-tatttaaagcataaggcacttgttatgttgtcatgataatgtgatgctgtacagctcaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
|| | |||| || ||||| | | | | | ||| | |||| | || | | || ||||||||| || |||||| |||| ||||||| || ||||||||||| || || || ||||| |||||||||||||||||| |||| ||||| || |||||
gtaggcttcttagttctcatatttcccgtcagctgatagcatcaaaagtatgtattaacttttattcttacaatcgactattgtggctcactgaaattccagTGTGATTCAATTCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAG
upper sequence: GLYMA16G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 3'ss of exon 11
tatagcgcatagtgttctatttaaagcat--aaggcacttgttatgttgtcatgataatgtgatgctgtaca-gctcaaagttctattgtt--ttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
| ||| || | || | | || || | | ||| || | || | | || || ||| | | ||| || | ||| ||||| || || || |||| ||||||| || || |||||||| ||||| |||||||| |||||||||||||| ||| |||| ||| ||||||||||
-----ctattagatgtcaaaccaagacttttaatatacagctgctaccctcacaattacatgttaatcctcacagtctgagtaatgtggttcatttaaaatgcagCGTGATTCAATTTTGTGCCACTGCATTTGGATATTACGCTCAAGCCACTGCTGCCCAGGAGATATTTGGCCACACATTGCAGTCCCTTAGAGGAATTAAG
upper sequence: GLYMA16G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 11
----------------------------------------------------------tata-gcgcatagtgttctatttaaagcataaggcacttgttatgttgtcatgataatgtgatgctgtacagctcaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
| | | | | | || ||| || | | | || | || || || | | || | ||| ||| | | | | |||||||||||| || |||||| |||||||||||| |||||||||||||||||||| || |||||||||||||||||||| |||| ||||| ||||||||||
gtttgcatgtttagtcctctaaattcattaacagatataattgggttgggaccagcaccacaaggggggactcttactgttattttatgtagaatatatttccagaccttggtag-atgtttatctataa-tcattgttgttggctcctccaatttcagTGTGATTCAATTCTGCGCCACAGCATTTGGTTACTATGCTCAAGCAACTGCTGCACAGGAAATATTTGGCCACACACTGGAATCTCTCAAAGGAATTAAA
upper sequence: GLYMA16G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ37798 (Selaginella moellendorffii), 3'ss of exon 11
tatagcgcatagtgttctatttaaagcataaggcacttgttatgttgtcatgataatgtgatgctgtacagctcaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
|||| | | | | | | | | | ||| || || || | || | ||||||||||||||||||||| | ||||||||| | ||||| | ||||| |||| || ||||||||||| | || | ||||| ||||| ||||| ||
---------------------------------------gtatgcactatcaagattcttagctttcaaaactccaacttggat---acaaactctccagTGTGATCCAGTTCTGCTCTAAAGCATTTGCATTGTATGCGCGTGCAACCACAGCTCAAGAAATATTTGGTCTTACACTTGAGTCCCTTCGTGGAATCAAG
upper sequence: GLYMA16G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ32053 (Selaginella moellendorffii), 3'ss of exon 11
tatagcgcatagtgttctatttaaagcataaggcacttgttatgttgtcatgataatgtgatgctgtacagctcaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
|||| | | | | | | | | | ||| || || || | || | ||||||||||||||||||||| | ||||||||| | ||||| | ||||| |||| || ||||||||||| | || | || || ||||| ||||| ||
---------------------------------------gtatgcactatcaagattcttagctttcaaaactccaacttggat---acaaactctccagTGTGATCCAGTTCTGCTCTAAAGCATTTGCATTGTATGCGCGTGCAACCACAGCTCAAGAAATATTTGGTCTTACACTTGAATCCCTTCGTGGAATCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcatgataatgtgatgctgtacagctcaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
ttgttttaccttttc CT-rich tract
tattgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatagcgcatagtgttctatttaaagcataaggcacttgttatgttgtcatgataatgtgatgctgtacagctcaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG