Sequence
atgc intronic sequence ATGC exonic sequencegttttcacccttgtcctatcttgtatgcttgcaatttcagttataacatgagttacaaatggtagttttcttttgaagGGTGGTGTTGGTTGCTCCATTAGCTGTAGATGTGAAGGATGCAAGAATGCTTTTGGTAGAAAGGATG
Basic information
species | Glycine max |
transcript | GLYMA11G00920.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G00920.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G22760.1 (Arabidopsis thaliana), 3'ss of exon 7
--gttttcacccttgtcctatcttgtatgcttgcaatttcagttataacatgagttacaaatggtagttttcttttgaagGGTGGTGTTGGTTGCTCCATTAGCTGTAGATGTGAAGGATGCAAGAATGCTTTTGGTAGAAAGGATG
||| || ||| | | | | ||| | | || || || | || | || |||| || |||||||| || || | |||||||||||||||||| || ||||| ||||| ||||| ||||
gtatttccattaaactccatacacatcagtgtaagattcccttc----tgtggattggttctgattcattgatcgtgtagGGCGGAGTTGGTTGTTCTATAAACTGTAGATGTGAAGGATGTAAAAATGCATTTGGCAGAAAAGATG
upper sequence: GLYMA11G00920.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G14770.1 (Arabidopsis thaliana), 3'ss of exon 6
----------gttttcacccttgtcctatct-tgtatgcttgcaatt--tcagttataacatgagttacaaa---tggta-gtt-ttcttttgaagGGTGGTGTTGGTTGCTCCATTAGCTGTAGATGTGAAGGATGCAAGAATGCTTTTGGTAGAAAGGATG
||| | ||| || || || | | || ||| ||| | ||| | | ||||| ||| || ||| ||||||||||| || || ||||| | |||||||||||||||||| ||||| || || || | || ||||
gtttttattttccctcatcgatgtgctttcaatggttccatgtgattaacttcctatggcctgattccggtaatttggtatgttgtttctttaaagGGTGGTGTGGGCTGTTCCATAAACTGTAGATGTGAAGGATGTAAGAACGCATTCGGCCGGAAAGATG
upper sequence: GLYMA11G00920.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv05s0020g03880.t01 (Vitis vinifera), 3'ss of exon 8
gttttcacccttgtcctatcttgtatgcttgc-aatttcagttataacatgagttacaaatggtagttttctttt-gaagGGTGGTGTTGGTTGCTCCATTAGCTGTAGATGTGAAGGATGCAAGAATGCTTTTGGTAGAAAGGATG
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gttttt-cccttggtccaccctatattttttttgatgttctatatcatctgattcagaattggtgcctttcttctcaaagGGTGGTGTTGGATGCTCCATTAACTGCCGGTGTGAAGGGTGTAAGAATGCATTTGGTAGAAAGGACGMapped 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|14010947|gb|BG725877.1|BG725877EST: GCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAG GGTGGTGTTGGTTGCTCCATTAGCTGTAGATGTGAAGGATGCAAGAATGCT
genomic: GCAACTGCAAAAAATCAAGCTGCCTAAAGAAATATTGTGAATGTTATCAGgttttcaccc ... tcttttgaagGGTGGTGTTGGTTGCTCCATTAGCTGTAGATGTGAAGGATGCAAGAATGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgcttgcaatttcagttataacatgagttacaaatggtagttttcttttgaagGGTGGTGTTGGTTGCTCCATTAGCTGTAGATGTGAAGGATGCAAGAATGCTTTTGGTAGAAAGGATG
ttataac putative branch site (score: 2)
ttttctttt putative PPT
aatttcagttataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttcacccttgtcctatcttgtatgcttgcaatttcagttataacatgagttacaaatggtagttttcttttgaagGGTGGTGTTGGTTGCTCCATTAGCTGTAGATGTGAAGGATGCAAGAATGCTTTTGGTAGAAAGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG