Sequence
atgc intronic sequence ATGC exonic sequence...gacaaccaaattcttagaatattattacatggtagatgtgtagattgtagagtgattgacacttacatgattattttgctttattttttgctcgttttagGTTTCTGCTGCCGGCTATGACAGACAAGGAGTCGCTGATCATGCTAATAATCTTGCTTCGAAAATCCGTAATAACTTGACCAACTCAATGAAAGCGCTTG
Basic information
species | Glycine max |
transcript | GLYMA07G37050.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 2
gacaaccaaattcttagaatattattacatggtagatgtgtagattgtagagtg----attgacacttacatgattattttgctttattttttgctcgttttagGTTTCTGCTGCCGGCTATGACAGACAAGGAGTCGCTGATCATGCTAATAATCTTGCTTCGAAAATCCGTAATAACTTGACCAACTCAATGAAAGCGCTTG
|| | | | | || ||| | | | ||| | | ||| |||| | | ||| | | || ||| | || | ||||||| | | || ||||||||||||| || ||||||||||| || ||||| || || |||||||| | |||||||| || ||||||||||| || |
--aggcctattacctgtggcctttgggcatcggctgttttctcattcttgtgtgttgcattgtgtcctgcataaatcattaagcccattctctgtacaac--agGTTTCATCCCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTCGCCTCTAAAATCCGAAGCAACTTGACTAATTCAATGAAAGCTCTGG
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 2
gacaaccaaattcttagaatattattacatggtagatgtgtagattgtagagtgattgacacttacatgattattttgctttattttttgctcgttttagGTTTCTGCTGCCGGCTATGACAGACAAGGAGTCGCTGATCATGCTAATAATCTTGCTTCGAAAATCCGTAATAACTTGACCAACTCAATGAAAGCGCTTG
|||||| | | | |||| | | || | | || | | | | | ||| | | ||| | || || || ||||||| || | || ||||||||||||| || ||||||||||| || |||||||| ||||||||||||| |||||||| |||||||||||||| || |
ctcaaccatttcttgtggtcattagcaattcttactcgaacatgttattatctattatcctgattgatgctgaatttttaggcatattaccttgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 2
gacaaccaaattcttagaatattattacatggtagatgtgtagattgtagagtgattgacacttacatgattattttgctttattttttgc-----tcgttttagGTTTCTGCTGCCGGCTATGACAGACAAGGAGTCGCTGATCATGCTAATAATCTTGCTTCGAAAATCCGTAATAACTTGACCAACTCAATGAAAGCGCTTG
| | ||||| | |||| ||| | ||| || || | | | | ||| || | | || |||| | || ||||| || | | || |||||||| || | || ||||| ||||| ||||||||||| || |||||||| | |||||||| || ||||||||||| || |
--taccttttctcttaaaccattagc-tatgatg--tgtataccttttccctttgtatcaagttattcatcccttgaccctaatcatttgtgatggttgtaatagGTCTCATCACCAGGATATGACAGGCAGGTTGTTGCTGACCATGCAAATAATCTTGCATCTAAAATCCGCAGCAACTTGACTAATTCAATGAAAGCTCTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtagagtgattgacacttacatgattattttgctttattttttgctcgttttagGTTTCTGCTGCCGGCTATGACAGACAAGGAGTCGCTGATCATGCTAATAATCTTGCTTCGAAAATCCGTAATAACTTGACCAACTCAATGAAAGCGCTTG
cacttac putative branch site (score: 2)
ctttattttttgctc putative PPT
ttacatgattattttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gacaaccaaattcttagaatattattacatggtagatgtgtagattgtagagtgattgacacttacatgattattttgctttattttttgctcgttttagGTTTCTGCTGCCGGCTATGACAGACAAGGAGTCGCTGATCATGCTAATAATCTTGCTTCGAAAATCCGTAATAACTTGACCAACTCAATGAAAGCGCTTG
- caaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - -gtgattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacttac