Sequence
atgc intronic sequence ATGC exonic sequencegtatctgactagttgttacaaatattaacttttgataaatcaaagaacagcaataacattttgttatcattctattttgtagGTTGACTTAAAGACATTCGCAAGTTGGGAGGATTCACCTGAGAAAATGATGATGGACATGATCTCCGATCCAAATGCTGTTCGAAGGGAAGACCACTGAG
Basic information
species | Glycine max |
transcript | GLYMA06G15580.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G15580.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g56790.1 (Oryza sativa), 3'ss of exon 5
--------gtatctgactagttgttacaaatattaacttt--tgata-----aatcaaagaacagcaat---aacattttgttatcattctattttgtagGTTGACTTAAAGACATTCGCAAGTTGGGAGGATTCACCTGAGAAAATGATGATGGACATGATCTCCGATCCAAATGCTGTTCGAAGGGAAGACCACTGAG
| ||| | || || || ||||| | | || || | |||| ||| || | ||| | ||| ||||||| | || ||||| | | ||||||||| || || ||||||||||||||||||||||| || ||||||||||| |||||| |||| |||| |||
gtactaatcaaagcacctaaatcttttaactactaactatgctagtactgttaaacgtgtgacagaaattttaatgactgtcccctatttttgttttcagGTTGATCTCAAAACATTTGGCAATTGGGAGGACTCTCCAGAGAAAATGATGATGGACATGATTTCTGATCCAAATGCAGTTCGACGGGAGGACCGTTGAA
upper sequence: GLYMA06G15580.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G39590.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatctgactagttgttacaaatattaacttttgataaatcaaa-gaacagcaataacattttgttatcattctatt--ttgtagGTTGACTTAAAGACATTCGCAAGTTGGGAGGATTCACCTGAGAAAATGATGATGGACATGATCTCCGATCCAAATGCTGTTCGAAGGGAAGACCACTGAG
||| || | | | | | || | | || || | | || | | |||| | | || | || || || | ||||| || || || | | ||||| |||||||||||||||||||||||||| ||||| |||| |||||| | ||| |||||| | |
gtaaaagaaaaacaccaaaagagcatgacatctattatgacatgcgcaaaggttttcaaatttgacacctttgttttatctgcagATCGACTTGAAAACGTTTACGAACTGGGAAGATTCACCTGAGAAAATGATGATGGATATGATGGGTAATCCTAATGCTCCTAGAAAGGAAGAGAGGTAAT
upper sequence: GLYMA06G15580.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv18s0001g13900.t01 (Vitis vinifera), 3'ss of exon 6
gtatctgactagttgttacaaatattaacttttgataaatcaaagaacag-caataacattttg-ttatcat-tctattttgtagGTTGACTTAAAGACATTCGCAAGTTGGGAGGATTCACCTGAGAAAATGATGATGGACATGATCTCCGATCCAAATGCTGTTCGAAGGGAAGACCACTGAG
||| ||| || | || ||| | ||| | | ||| || ||| |||| |||||||||| || ||||| || |||||||| |||||||||||||| ||||||||||| | || || ||||| || ||| |||| |||| || |
--------------------gtaatttactgttattggattaaaagtttctccatagagtatgaattaacacgtcttttttccagGTTGACTTGAAAACATTTGCGAGTTGGGATGATTCACCTGAGAAGATGATGATGGATGTTATGTCTGATCCTAACAGAGTTAATCGGGAGGACCGCTAATMapped 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|16344630|gb|BI970225.1|BI970225EST: AAGAAGAGAGAAGAACTTTTCACTGAGCAAAGAAGAAAT GTTGACTTAAAGACATTCGCAAGTTGGGAGTATTCACCTGAGAAAATGATG
genomic: AAGAAGAGAGAAGAACTTTTCACTGAGCAAAGAAGAAATgtatctgact ... tattttgtagGTTGACTTAAAGACATTCGCAAGTTGGGAGGATTCACCTGAGAAAATGATG
EST:
gi|16345882|gb|BI971477.1|BI971477EST: GAAGAGAGAAGAANNNNTCACTGAGCAAAGAAGAAAT GTTGACTTAAAGACATTCGCAAGTTGGGAGTATTCACCTGAGAAAATGATG
genomic: GAAGAGAGAAGAACTTTTCACTGAGCAAAGAAGAAATgtatctgact ... tattttgtagGTTGACTTAAAGACATTCGCAAGTTGGGAGGATTCACCTGAGAAAATGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttttgataaatcaaagaacagcaataacattttgttatcattctattttgtagGTTGACTTAAAGACATTCGCAAGTTGGGAGGATTCACCTGAGAAAATGATGATGGACATGATCTCCGATCCAAATGCTGTTCGAAGGGAAGACCACTGAG
ttctatttt CT-rich tract
aataacattttgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatctgactagttgttacaaatattaacttttgataaatcaaagaacagcaataacattttgttatcattctattttgtagGTTGACTTAAAGACATTCGCAAGTTGGGAGGATTCACCTGAGAAAATGATGATGGACATGATCTCCGATCCAAATGCTGTTCGAAGGGAAGACCACTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA