Sequence
atgc intronic sequence ATGC exonic sequence...tccattactttctttctttgattacttactgttgctgtatagtgagaatgatgtgatcttgtgattgtctttctctgcttaatatttaactcattttcagGGGCCAAGCTGAGAGAGAATTTAAAGTTGAGGTAGAAGCAATTGGTCGTGTGCGGCACAAGAATCTTGTTAGGTTGCTTGGATACTGTGTTGAGGGGGCA
Basic information
species | Glycine max |
transcript | GLYMA07G07250.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G07250.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G014366_T03 (Zea mays), 3'ss of exon 1
tccattactttctttctttgattacttactgttgctgtatagt-gagaatgatgtgat-cttgtgattgtctttctctgcttaatatttaactcattttcagGGGCCAAGCTGAGAGAGAATTTAAAGTTGAGGTAGAAGCAATTGGTCGTGTGCGGCACAAGAATCTTGTTAGGTTGCTTGGATACTGTGTTGAGGGGGCA
|| ||| | | | | | || || | | | || | || ||| | | || || ||| | ||| | ||||||||| || |||| || || || || ||||| ||||||||||||||||| |||||||| ||||| || ||||||||||| ||||| || || || ||
--cagatttttgaatactacactgttctctaggattgggttgccgtttatttcatcatgctttctgataacattatccactttttgttttctcaaacaccagGGGCCAGGCCGAGAAGGAGTTCAAGGTGGAGGTCGAAGCAATTGGTCGTGTTCGGCACAAAAATCTCGTCAGGTTGCTTGGTTACTGCGTAGAAGGTGCT
upper sequence: GLYMA07G07250.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 1
tccattactttctttctttgattacttactgttgctgtat-agtgagaatgatgtgatcttgtgattgtcttt-ctctgcttaatat--ttaactcattttcagGGGCCAAGCTGAGAGAGAATTTAAAGTTGAGGTAGAAGCAATTGGTCGTGTGCGGCACAAGAATCTTGTTAGGTTGCTTGGATACTGTGTTGAGGGGGCA
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----tctttctcaatagctgctcaacaataatttgcatattatttccatttttcttatatttagatcttttgtgcattaccttatgagattaatgaattaccagAGGCCAAGCTGAGAAGGAATTCAAAGTGGAGGTTGAAGCCATAGGCCGGGTCCGGCACAAGAATCTTGTTAGGTTGCTGGGATACTGTGCTGAGGGAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatgatgtgatcttgtgattgtctttctctgcttaatatttaactcattttcagGGGCCAAGCTGAGAGAGAATTTAAAGTTGAGGTAGAAGCAATTGGTCGTGTGCGGCACAAGAATCTTGTTAGGTTGCTTGGATACTGTGTTGAGGGGGCA
atttaac putative branch site (score: 3)
ctcattttc CT-rich tract
ttaatatttaactcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccattactttctttctttgattacttactgttgctgtatagtgagaatgatgtgatcttgtgattgtctttctctgcttaatatttaactcattttcagGGGCCAAGCTGAGAGAGAATTTAAAGTTGAGGTAGAAGCAATTGGTCGTGTGCGGCACAAGAATCTTGTTAGGTTGCTTGGATACTGTGTTGAGGGGGCA
- - - - - - - - - - - - - - ctgttgc
- - - - - - - - - - - - - - - - - - - - - - - - tgatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tcttgtg