Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgactagttttataaataattcccacttgcatttagaagattgagatgctaacccaattcatataattggatatcttttttcagTTTGTGGATGAAGCTTGCCATCAGATTGAAAGAAGTGAGCGCAATGCTCGCCAAACGGGTGTCCTACCGTACATTCCTAG
Basic information
species | Glycine max |
transcript | GLYMA04G03710.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G03710.1 (Glycine max), 3'ss of exon 17
lower sequence: AT1G47550.2 (Arabidopsis thaliana), 3'ss of exon 17
gtatgtgactagttttataaataattcccacttgcatttagaagattgagatgctaacccaattcatataattggatatcttttttcagTTTGTGGATGAAGCTTGCCATCAGATTGAAAGAAGTGAGCGCAATGCTCGCCAAACGGGTGTCCTACCGTACATTCCTAG
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------gtccgtctactcaaagattgtttagtttttgttcctggcataccattcctact-aatcaattcaagttgac-tttaactgcagTTTGTGGATGAAGCTTGTCACCAAATTGAAAGAAATGAACGTAATGTAAGACAGATGGGTGTCTTGCCATATATTCCAAG
upper sequence: GLYMA04G03710.1 (Glycine max), 3'ss of exon 17
lower sequence: AT1G47550.1 (Arabidopsis thaliana), 3'ss of exon 17
gtatgtgactagttttataaataatt-cccacttgcatttagaagattgagatgctaacccaattcatataattggatatcttttttcagTTTGTGGATGAAGCTTGCCATCAGATTGAAAGAAGTGAGCGCAATGCTCGCCAAACGGGTGTCCTACCGTACATTCCTAG
|| || | | || ||| | || || | | || | || ||| || || | || | | | |||||||||||||||||||| || || |||||||||| ||| || |||| | || | ||||||| | || || ||||| ||
----gtagtccgtctactcaaagattgtttagtttttgttcctggcataccattcctact-aatcaattcaagttgac-tttaactgcagTTTGTGGATGAAGCTTGTCACCAAATTGAAAGAAATGAACGTAATGTAAGACAGATGGGTGTCTTGCCATATATTCCAAG
upper sequence: GLYMA04G03710.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 17
----gtatgtgact---agttttataaata-attcccacttgcatttagaagattgagatgctaacccaattcatataattggatatcttttttcagTTTGTGGATGAAGCTTGCCATCAGATTGAAAGAAGTGAGCGCAATGCTCGCCAAACGGGTGTCCTACCGTACATTCCTAG
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gtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttacc-agtctaagcaatgaattatgt---tgcagTTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGGCAGACGGGTGTATTATCATATATTCCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catttagaagattgagatgctaacccaattcatataattggatatcttttttcagTTTGTGGATGAAGCTTGCCATCAGATTGAAAGAAGTGAGCGCAATGCTCGCCAAACGGGTGTCCTACCGTACATTCCTAG
tgctaac putative branch site (score: 1)
tatcttttttc putative PPT
atataattggatatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgactagttttataaataattcccacttgcatttagaagattgagatgctaacccaattcatataattggatatcttttttcagTTTGTGGATGAAGCTTGCCATCAGATTGAAAGAAGTGAGCGCAATGCTCGCCAAACGGGTGTCCTACCGTACATTCCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT