Sequence
atgc intronic sequence ATGC exonic sequencegtgattgtttgtaccttactttttctagaagcaagttcattcgagacatgtaaacttgtaagtaaaagtgtatttttttttttgtgtgtgcgtgtgtgtgcagTGGAACTTTCGCATCGGTTTTACTCCTAGGGAAGGTTTGGTTATTTATTCTGTAGCCTATATTGATGGAAGTCGAGGGCGAAGGCCTGTGGCCCACAGAT
Basic information
species | Glycine max |
transcript | GLYMA02G04360.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G04360.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g38010.1 (Oryza sativa), 3'ss of exon 5
gtgattgtttgtaccttactttttctagaagcaagttcattcgagacatgtaa-acttgtaagtaaaagtgtattt-----ttttttttgtgtgtgcgtgtgtgtgcagTGGAACTTTCGCATCGGTTTTACTCCTAGGGAAGGTTTGGTTATTTATTCTGTAGCCTATATTGATGGAAGTCGAGGGCGAAGGCCTGTGGCCCACAGAT
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--gttaactggttatcttctgtttcttgtttcaa--ttgttgagcacttgagctactattagataaaactgactcaaaaaatctcacctgt-tatttctat-tgaacagTGGAACTTCCGTATTGGCTTTACTCCCAAAGAAGGTTTAGTTATTCATTCTGTTGCATATGTTGATGGAAACCGTGGGCGTCGACCTATCGCTCACAGGC
upper sequence: GLYMA02G04360.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 5
gtgattgtttgtaccttactttttctagaagcaagttcattcgagacatg---taaacttgtaagtaaaagtgt-atttttttttttgtgtgtgcgtgtgtgtgcagTGGAACTTTCGCATCGGTTTTACTCCTAGGGAAGGTTTGGTTATTTATTCTGTAGCCTATATTGATGGAAGTCGAGGGCGAAGGCCTGTGGCCCACAGAT
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----------gtgattacctttttgggaaagtaggttactggaaaatctaagttcaacctgctatatggcttatcatctatttttatttttattcct-cattggcagTGGAATTTTCGTATTGGTTTCACCCCCAGAGAGGGTTTGGTTATTTATTCTGTTGCATATATTGATGGTAGTCGAGGTCGAAGATCTGTGGCCCATAGGT
upper sequence: GLYMA02G04360.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S178_54V6.1 (Physcomitrella patens), 3'ss of exon 6
gtgattgtttg--taccttactttttctagaagcaagttcattcgagacatgtaaacttgtaagtaaaagtgtatttttttttttgtgtgtgcgtgtgtgtgcagTGGAACTTTCGCATCGGTTTTACTCCTAGGGAAGGTTTGGTTATTTATTCTGTAGCCTATATTGATGGAAGTCGAGGGCGAAGGCCTGTGGCCCACAGAT
| || || | | | |||| | || | || || || | || || | | | ||| | | || | | | ||| | |||||||||||||| || ||||||||||| |||||||| ||||||||| || | || |||||| ||||| |||||||| || | | || || || |
-taatggtaaaaatgcttcgacttttgtgtcgaaaacataatattagtttaactaa-taatagttattatttaaactttctatctgggaat---tttgtttacagTGGAACTTTCGAATTGGTTTTACTCCAAGGGAAGGATTGGTTATTCATACCGTCGCCTATGACGATGGGAGTCGAGGAAGACGATCAGTCGCACATCGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaaacttgtaagtaaaagtgtatttttttttttgtgtgtgcgtgtgtgtgcagTGGAACTTTCGCATCGGTTTTACTCCTAGGGAAGGTTTGGTTATTTATTCTGTAGCCTATATTGATGGAAGTCGAGGGCGAAGGCCTGTGGCCCACAGAT
ttgtaagtaaaagtgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgattgtttgtaccttactttttctagaagcaagttcattcgagacatgtaaacttgtaagtaaaagtgtatttttttttttgtgtgtgcgtgtgtgtgcagTGGAACTTTCGCATCGGTTTTACTCCTAGGGAAGGTTTGGTTATTTATTCTGTAGCCTATATTGATGGAAGTCGAGGGCGAAGGCCTGTGGCCCACAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG