Sequence
atgc intronic sequence ATGC exonic sequence...attattcttgccagttgaataaattgtttggtattttgtattgagttgacaaagttatcattctcaaaggtttatcctttcatttatttctaattgatagGGTTTGGCTGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTCTTCTTGTCATTGTAGTTACAG
Basic information
species | Glycine max |
transcript | GLYMA08G23760.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G23760.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 3'ss of exon 6
--attattc-ttgccagttgaataa-attgtttggtattttgtattg-agttgacaaagttatcattctcaaaggtttatcctttcatttatttctaattgatagGGTTTGGCTGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTCTTCTTGTCATTGTAGTTACAG
||| | || || ||||| | ||||| ||| || | | | || ||| | || | || | | ||| | | ||||| | ||||| ||||||||||| | ||||||||||||||| ||||| || || |||| |||||||
tggccatttgccacttactgtttatcgctgtttttttttttggtttgtagctataactttcattatttttggag-----ttaattaactccttttttgtgtgtagGGGATAAAAGAAGGCTGGTATGATGGAGCAAGCATTGCTTTTGCTGTTCTCCTAGTTGTTGTTGTTACAG
upper sequence: GLYMA08G23760.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G21180.1 (Arabidopsis thaliana), 3'ss of exon 5
attattcttgccagttgaataaattgtttggtattttgtattgagttgacaaagttatcattctcaaaggtttatcctttcatttatttctaattgatagGGTTTGGCTGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTCTTCTTGTCATTGTAGTTACAG
| || || || || | || || | || | | | | | | ||| | | ||| || | || |||||||| ||||| ||| |||||| ||||||||||| ||||| ||| | ||||||||||| |||||||
------------gtatacatgctttcctttcgataagttcttagtttttcgaaatcaggaatgt-actaattttctgtcttattacttcatgatc---agGGTTTGAAAGAAGGTTGGCTTGATGGTGGAAGCATTGCCTTTGCGGTTTTGCTTGTCATTGTTGTTACAG
upper sequence: GLYMA08G23760.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 7
---------attattcttgccagttgaataaattgtttggtattttgt-attgagttgacaaagttatcattctcaaaggtttatcctttcatttatttctaattgatagGGTTTGGCTGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTCTTCTTGTCATTGTAGTTACAG
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cggtcttcacttgtttctgc--atagtgtttattctataa-atcctgtgattgtcttagctttctgattattct----gacttgtttctttttctatcttc---tcacagGGTGTGAAAGAAGGATGGTATGATGGGGGTAGCATTGCCTTTGCAGTGTTTCTTGTTATATTTGTTACTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|208108028|gb|GD906152.1|GD906152EST: TATTGATAATAGCTGCTGCGGTGTCATTGGCACTTGGAATAAAAACAGAG GGTTTGGCTGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTCTT
genomic: TACTGATAATAGCTGCTGCGGTGTCATTGGCACTTGGAATAAAAACAGAGgtgcaatcag ... taattgatagGGTTTGGCTGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgacaaagttatcattctcaaaggtttatcctttcatttatttctaattgatagGGTTTGGCTGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTCTTCTTGTCATTGTAGTTACAG
ttctaat putative branch site (score: 2)
tttatcctttcattta CT-rich tract
tttcatttatttctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attattcttgccagttgaataaattgtttggtattttgtattgagttgacaaagttatcattctcaaaggtttatcctttcatttatttctaattgatagGGTTTGGCTGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTCTTCTTGTCATTGTAGTTACAG
- - - cttgcca
- - - - - - - - - - - -ttgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - cattctc