Sequence
atgc intronic sequence ATGC exonic sequence...acggtcctaatcccagtcttgaaggttgtctaaccattgaatatgaaaattatcaattgtggtatgtgtttttttttaatttggtaattaataaatgcagGGTCCTTTGCTGGCCTTGGTTTCCTTTCATGGTACTTATCAAGGAAAGTTAGAGTGTTTGATCGTAGGGGCAATATTGGGAAACTATGCCTAGTCTTGCT
Basic information
species | Glycine max |
transcript | GLYMA11G29390.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G29390.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g49820.2 (Oryza sativa), 3'ss of exon 5
----------------------------------------------------------------------------acggtcctaatcccagtcttgaaggttgtctaaccattgaatatgaaaattatcaattgtggtatgtgttt------ttttttaatttggtaattaataaatg----------cagGGTCCTTTGCTGGCCTTGGTTTCCTTTCATGGTACTTATCAAGGAAAGTTAGAGTGTTTGATCGTAGGGGCAATATTGGGAAACTATGCCTAGTCTTGCT
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gtaagtgaattctgtcagttgataatttcgtatgtatttctctaccttgttactacgaaatctcagtggaatttcagttagcattatcaaacacataggattggtcatactctagactgcaagagcttttacgtgctgcctgctcttgtggagtactgtggatcgctgacgaatttatttttgtttcttcagGGTCTTTTGCTGGCCTTGGTTTCCTGTCATGGTATCTGGCTGGTAAAATAAAAGTTTTTGACAGAAGAGGCCATGTTGCAAAACTCTGCATTATTATTCT
upper sequence: GLYMA11G29390.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G077187_T01 (Zea mays), 3'ss of exon 5
acggtcctaatcccagtcttgaaggttgtctaaccattgaatatgaaaattatcaatt-gtggtatgtgtttttttttaatttggtaatt----aataaatgcagGGTCCTTTGCTGGCCTTGGTTTCCTTTCATGGTACTTATCAAGGAAAGTTAGAGTGTTTGATCGTAGGGGCAATATTGGGAAACTATGCCTAGTCTTGCT
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----ttcgtagcacaaagttattgttctcttgagtctagaatat-aaacttttcaatcagctgttactgttggtggattactcaaagattttatgtttatcttagGGTCTTTTGCTGGCCTTGGGTTCCTTTCATGGTATTTGGCTGGTAAAATCAAAGTATTCGATCGTAGAGGACATGTTGCAAAAGTCTGCATTGTCCTTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaattatcaattgtggtatgtgtttttttttaatttggtaattaataaatgcagGGTCCTTTGCTGGCCTTGGTTTCCTTTCATGGTACTTATCAAGGAAAGTTAGAGTGTTTGATCGTAGGGGCAATATTGGGAAACTATGCCTAGTCTTGCT
aattaat putative branch site (score: 3)
tatgtgttttttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acggtcctaatcccagtcttgaaggttgtctaaccattgaatatgaaaattatcaattgtggtatgtgtttttttttaatttggtaattaataaatgcagGGTCCTTTGCTGGCCTTGGTTTCCTTTCATGGTACTTATCAAGGAAAGTTAGAGTGTTTGATCGTAGGGGCAATATTGGGAAACTATGCCTAGTCTTGCT
- - - - - tcccagt
- - - - - - - - - - - - - - -ctaacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtatgtg