Sequence
atgc intronic sequence ATGC exonic sequencegtaggttttccctgtttttttttcctcatttaatttttggttaactgcttatccttttccaaaactgcaaaacaaggatattagttagttattttttgttttttgctttttttttccagCTATGTTAATAGAAAAGGTTGGCAGCATTATTTCAAGAGTTACTGCATTCCGGAAGATTTGGTTCCACGTATTTTATCTCCTGCTTATTTTCACCATTAT
Basic information
species | Glycine max |
transcript | GLYMA16G09740.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G09740.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G148913_T01 (Zea mays), 3'ss of exon 6
-----------------------gtaggttttccctgtttttttttcc--tcatttaa-----tttttggttaa--ctgcttatccttttccaaaactgcaaaacaag---gatatta-----gttagttattttttgttttttgctttttttttccagCTATGTTAATAGAAAAGGTTGGCAGCATTATTTCAAGAGTTACTGCATTCCGGAAGATTTGGTTCCACGTATTTTATCTCCTGCTTATTTTCACCATTAT
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gtaagtttctttagatgtagctagaatgctgaacttgattgagcatacgactattagaaaatactattagctaacgctgcttatctggagaaaggtaagtgtaacaggtttgatgctatcgaaattgctcctttattcatttgttttcctttttgttagTTATGTTCACAAAAGAGGATGGCAGGACTACTTCAAATCCTATTGTATTCCAGAAGACTTGGTACCACGCATTCTATCTCCAGCTTATTTTCACCACTAC
upper sequence: GLYMA16G09740.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G07400.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaggttttccctgtttttttttcctcatttaatttttggttaactgcttatccttttccaaaactgcaaaacaaggatattagttagttattttttgttttttgctttttttttccagCTATGTTAATAGAAAAGGTTGGCAGCATTATTTCAAGAGTTACTGCATTCCGGAAGATTTGGTTCCACGTATTTTATCTCCTGCTTATTTTCACCATTAT
| ||||||| ||| ||| | | | | || || | | | | | | | || | || |||||| ||| |||||| || |||||| ||||| ||||||||||| || ||||||||||| ||||||||||| || | || ||||||||||| |||||||| |||||
----------------------------gtatgtttttggagcactagttaaacatacagctgggattagtaatagcattctcataacgtttgcctcgcttggt-tttgttttttgcagTTATGTTCATGAAAAAGGGTGGCATCATTATTTCAAAAGCTACTGCATTCCTGAAGATTTGGTCCCGAGGATATTATCTCCTGCATATTTTCATCATTAC
upper sequence: GLYMA16G09740.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0630g00010.t01 (Vitis vinifera), 3'ss of exon 6
gtaggttttccctgtttttttttcctcatttaatttttggttaactgcttatccttttccaaaactgcaaaacaaggatattagttagttattttttgttttttgctttttttttccagCTATGTTAATAGAAAAGGTTGGCAGCATTATTTCAAGAGTTACTGCATTCCGGAAGATTTGGTTCCACGTATTTTATCTCCTGCTTATTTTCACCATTAT
||| |||| | || |||||| | | | || ||| || ||| | ||| | | | | | | | | ||| || |||| || | | ||| | || ||| ||||||||||||||||| ||||| ||||||||||||| ||||||||||||||| ||| |||| || || || || || |||||||||||||| || |||
gtaagtttcacatggttttttggcatatgcaagttccatgttgtcttcttttttgttttc-----ttcgacattaaattctccgttgcataatttt-gtctgcttatttcctctttcagTTATGTTAATAGAAAAGGATGGCACCATTATTTCAAGACTTACTGCATTCCGGAGGATCTGGTGCCTCGCATCTTGTCACCTGCTTATTTTCATCACTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgcaaaacaaggatattagttagttattttttgttttttgctttttttttccagCTATGTTAATAGAAAAGGTTGGCAGCATTATTTCAAGAGTTACTGCATTCCGGAAGATTTGGTTCCACGTATTTTATCTCCTGCTTATTTTCACCATTAT
ttattttttgtttttt CT-rich tract
atattagttagttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggttttccctgtttttttttcctcatttaatttttggttaactgcttatccttttccaaaactgcaaaacaaggatattagttagttattttttgttttttgctttttttttccagCTATGTTAATAGAAAAGGTTGGCAGCATTATTTCAAGAGTTACTGCATTCCGGAAGATTTGGTTCCACGTATTTTATCTCCTGCTTATTTTCACCATTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA