Sequence
atgc intronic sequence ATGC exonic sequence...atcatcatctgaattatgttttgggatacaggatttattttaaatcataacttgatcaaattgattgtctgacaagtcatctacctgcaacaatgtttagGCAGTCCTGTTCTTGGCTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCCATCATTCGTCATGTTCATGGAACAAAAGCAATAGCCGAGTT
Basic information
species | Glycine max |
transcript | GLYMA07G08030.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g58620.1 (Oryza sativa), 3'ss of exon 4
atcatcatctgaattatgttttgggatacaggatttattttaaatcataacttgatcaaattgattgtctgacaagtcatct----acctgcaac--aatgtt-tagGCAGTCCTGTTCTTGGCTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCCATCATTCGTCATGTTCATGGAACAAAAGCAATAGCCGAGTT
|| | || | || | | |||| || | | ||| ||| |||| || | || | | | |||| | || | |||| |||||||||||||| || ||||||||||| || | || || || ||||| || |||||||| |||||||| ||||||||||||||||| || || ||
-acaaagtacaaacattcactttgattttctaatttgaaatatctgaacgtttgttca------ctgtccgatatttctttttctaatatgcaccttgatatcatagGTAGTCCTGTTCTTGGATATCTGGCTGCTGGTGTCCTAATCGGTCCCTATGGGCTTTCCATCATCCGTCATGTCCATGGAACAAAAGCAATTGCTGAATT
upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G058948_T01 (Zea mays), 3'ss of exon 3
atcatcatctgaat-tatgttttgggatacaggatttattttaaatcataa--cttgatcaaattgattg-----tctgacaagtcatctacctgcaacaatgt-ttagGCAGTCCTGTTCTTGGCTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCCATCATTCGTCATGTTCATGGAACAAAAGCAATAGCCGAGTT
|| || || | ||| || ||| | | || | ||||| | || || || | ||| | ||| | | | | | || | |||||||||||||||||||| || | ||||||||| || | ||||| || ||||| ||||||||||| ||| |||| ||||| ||||| ||||| || || ||
------atgtgcatacaaaagttgagaaacatc-tgtgattaagatcatcagttttcatggaagtttttgtgaccttctgcaaataaatt--ttaccttgatatcttagGCAGTCCTGTTCTTGGATATCTTGCTGCTGGTGTCCTCATTGGTCCATATGGGCTCTCCATCATCCGTAATGTGCATGGGACAAAGGCAATTGCGGAATT
upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G093643_T01 (Zea mays), 3'ss of exon 4
-------at-catcatctgaattatgttttgggatacaggatttattttaaatcataacttgatcaaattgattgtctgacaagtcatctacctgcaacaatgtttagGCAGTCCTGTTCTTGGCTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCCATCATTCGTCATGTTCATGGAACAAAAGCAATAGCCGAGTT
|| || | ||| | ||| | || | | ||| || | | | | || || | | |||| | ||||| | | |||||||||||||||||||| || | ||||||||| || | ||||| || ||||| || |||||||| ||| |||| |||| ||||| ||||| || || ||
aggatgcatacaaaagttgagaaacatttgtgattaagaccatcagttttcatggaagttctgtgacctt--ctg-caaataagt--tttacct-tgatacc--ttagGCAGTCCTGTTCTTGGATATCTTGCTGCTGGTGTCCTCATTGGTCCATATGGGCTGTCCATCATCCGTAATGTGCATGAGACAAAGGCAATTGCGGAATT
upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------------------------------------atcat-catctgaattatgttttgggatacaggatttatttta----aatcataacttgatcaaattgattgtctgacaagtcatctac--ctgcaacaatgtttagGCAGTCCTGTTCTTGGCTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCCATCATTCGTCATGTTCATGGAACAAAAGCAATAGCCGAGTT
| || ||| || || | | || | || |||||||| | ||| | || | || | | |||| |||| | ||||||| ||||||||||| || ||||| || || ||||||||||| |||||||||||||| || |||||| |||| |||||||| || || || || || ||
gtaacgtaatatattaattcactcattgtattttaaatccccatattttgtcctccttgtttcatttggacttgtactattcattgttatcatcagacaaaccatttcacttctgttgccgcaatcataatgcatagagatttaaatgctatcttgttggtttcttctgctgcaatctatagGCAGCCCTGTTCTTGGGTATTTGGCGGCGGGAATCTTGATTGGTCCTTATGGTCTCTCAATAATTCGTAATGTGCATGGAACCAAGGCCATTGCAGAATT
upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 2
--atcatcatctgaat-tatgtt--ttgggatacaggatttatt-ttaaatcataacttgatcaaattgattgtctgacaagtcatctacctgcaacaatgtttagGCAGTCCTGTTCTTGGCTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCCATCATTCGTCATGTTCATGGAACAAAAGCAATAGCCGAGTT
|| || | | | | || || | || |||||| || | | |||||| || | ||| || | |||| || ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||| || ||||||||||| ||||| || ||||| || || || ||
gcatatatatgtcactgtgccttcatttcctttcaaagtttattgccaagtttctgtactgtttcattgatagtgt-----gtcttccatctgctgca-tgtttagGCAGTCCTGTTCTTGGTTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCTATTATTCGTCATGTACATGGGACCAAAGCGATTGCAGAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cataacttgatcaaattgattgtctgacaagtcatctacctgcaacaatgtttagGCAGTCCTGTTCTTGGCTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCCATCATTCGTCATGTTCATGGAACAAAAGCAATAGCCGAGTT
aaattgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcatcatctgaattatgttttgggatacaggatttattttaaatcataacttgatcaaattgattgtctgacaagtcatctacctgcaacaatgtttagGCAGTCCTGTTCTTGGCTACTTGGCTGCTGGTATCTTGATTGGGCCTTATGGTCTCTCCATCATTCGTCATGTTCATGGAACAAAAGCAATAGCCGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - -catctga
- - - - - - - - tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacaag