Sequence
atgc intronic sequence ATGC exonic sequenceagttcagttttttttcttcaaaggggtaccccttttggattcttggagtttttttgggtgtttgtgattgtggcctgttgatgtgtttcaGGTGAGGACTGCAATGACCATGACTGAGAAGATACTGGCCAGAGCTTCTGAGAAGGTACAGCTGACCCCTGGCGATAATGTTTGGGTCAATGTTGATATT
Basic information
species | Glycine max |
transcript | GLYMA17G37540.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G37540.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 2
--------------------------------------agttcagttttttttcttcaaaggggtaccccttttggattcttggagtttt--tttgggtgtttgtgattgtggcctgttg-atgtgtttcaGGTGAGGACTGCAATGACCATGACTGAGAAGATACTGGCCAGAGCTTCTGAGAAGGTACAGCTGACCCCTGGCGATAATGTTTGGGTCAATGTTGATATT-
|| |||||| | || | | | |||| | | || || | || ||| | | |||| | ||| || ||||||||| | ||||||||||||||||||||| ||||| | ||||| |||||| |||| ||||||| ||| || || ||||||||||| ||||||||||
gttgggtttctttctttccttcttcatttcttcatttggtttttattttttatttttcattgaattgatgttttctgtagtgggtattaaaatccggtggttgatagtggtgggtttttggattggtttcagGTCAAGACTGCAATGACCATGACTGAAAAGATTTTAGCCAGGGCTTCTCAGAAACCCCAGCTGAGCCCAGGTGAGAATGTTTGGGTAGATGTTGATATCT
upper sequence: GLYMA17G37540.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0049g01980.t01 (Vitis vinifera), 3'ss of exon 2
------------------------------------------------------agttcagttttttttcttcaaaggggtaccccttttggattcttggagtt--tttttgggtgtttgtgattgtggcctgttgatgtgttt-caGGTGAGGACTGCAATGACCATGACTGAGAAGATACTGGCCAGAGCTTCTGAGAAGGTACAGCTGACCCCTGGCGATAATGTTTGGGTCAATGTTGATATT-
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gttcggtttctttctttctttctttctttctttcttcatttctgcttcttcttcattatatatttataatttgcattcgattgttcttttctgtggtgggtattagtatttgatggtttatattagtgggattttggattgttttcagGTAAAGACTGCAATGACCATGACCGAGAAGATCTTGGCCAGGGCTTCTGAAAAACCCCAGCTGAGCCCAGGTGAGAATGTATGGGTAAATGTTGATCTCTMapped 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|15813786|gb|BI786061.1|BI786061EST: CAACCTTCCACCACTGGATC AGTGAGGACTGCAATGACCATGACTGACAAGATACTGGCCAGAGCTTCTGA
genomic: CAACCTTCCACCACTGGATCagttcagttt ... atgtgtttcaGGTGAGGACTGCAATGACCATGACTGAGAAGATACTGGCCAGAGCTTCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggattcttggagtttttttgggtgtttgtgattgtggcctgttgatgtgtttcaGGTGAGGACTGCAATGACCATGACTGAGAAGATACTGGCCAGAGCTTCTGAGAAGGTACAGCTGACCCCTGGCGATAATGTTTGGGTCAATGTTGATATT
tgttgat putative branch site (score: 4)
agttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttcagttttttttcttcaaaggggtaccccttttggattcttggagtttttttgggtgtttgtgattgtggcctgttgatgtgtttcaGGTGAGGACTGCAATGACCATGACTGAGAAGATACTGGCCAGAGCTTCTGAGAAGGTACAGCTGACCCCTGGCGATAATGTTTGGGTCAATGTTGATATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA