Sequence
atgc intronic sequence ATGC exonic sequence...atttcattgatatattttatatttttctttattaatcattgcaatgtttaaccattggagccaaatgtttgatatttgcttaaattctctaattatgaagGTAAGAGGCCAAATTAGTGTATACAGTGGAGGAAGCTTAATCTTTGGGTTGTCTGATTATCCAATTTCTGAGTTTGAGCTTGTTGCAGAAGAGCTTTTAC
Basic information
species | Glycine max |
transcript | GLYMA01G41140.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G41140.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g10380.1 (Oryza sativa), 3'ss of exon 3
atttcat--tgatatattttatatttttctttattaatcattgcaatgtttaaccattggagccaaatgtttgatatttgcttaaattctctaattatgaagGTAAGAGGCCAAATTAGTGTATACAGTGGAGGAAGCTTAATCTTTGGGTTGTCTGATTATCCAATTTCTGAGTTTGAGCTTGTTGCAGAAGAGCTTTTAC
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tttgcgaggtgctgctttttattgtttcctgtatta-ccatctccacttatgcgtacctgcctgtccactaatacattctctccttttttctatttatca-gGTCACAGGCCAAATTAGACTACTTAGCAAGGGTAGCATCAGCTTTGGGTTGTCTGAAAATCCAATATCAGAATTTGAGCTGGTTGCAGAAGAGCTTTTAA
upper sequence: GLYMA01G41140.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G47020.1 (Arabidopsis thaliana), 3'ss of exon 4
atttcattgatatattttatatttttctttattaatcattgcaatgtttaaccattggagccaaatgtttgatatttgct--taaattctctaattatgaagGTAAGAGGCCAAATTAGTGTATACAGTGGAGGAAGCTTAATCTTTGGGTTGTCTGATTATCCAATTTCTGAGTTTGAGCTTGTTGCAGAAGAGCTTTTAC
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gcttaatagaagatccttggtctctcttcctttgaatact-tagtatgttggcactacccccta-tggttgttacttgttatttatttttctgattctgaagGTCGGAGGTCAAATCAGTCTTTATCGGGGAAGCAGCATTGTTTTCGGGTTATCAAAATATCCAATTTCAGAATTTGAGCTTGTTGCTGAAGAACTTTTAA
upper sequence: GLYMA01G41140.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 3
atttcattgatatattttatatttttctttattaatcattgcaatgtttaaccat-tggagccaaatgtttgatatttgcttaaattctctaattatgaagGTAAGAGGCCAAATTAGTGTATACAGTGGAGGAAGCTTAATCTTTGGGTTGTCTGATTATCCAATTTCTGAGTTTGAGCTTGTTGCAGAAGAGCTTTTAC
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atagcaactattagaggcaatttacctttttgtatttattctgattttaatccctcttaaggatagtttttaatgttccattga-ttttttggttgtaaagGTGAGAGGTCAAATTAAACTACTCTGTGGGGGCAGCATCATCTTTGGACTGTCAGAGTATCCAATCTCAGAATTTGAGCTTGTTGCAGAAGAACTTTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttaaccattggagccaaatgtttgatatttgcttaaattctctaattatgaagGTAAGAGGCCAAATTAGTGTATACAGTGGAGGAAGCTTAATCTTTGGGTTGTCTGATTATCCAATTTCTGAGTTTGAGCTTGTTGCAGAAGAGCTTTTAC
ctctaat putative branch site (score: 3)
ttctcta CT-rich tract
ttaaattctctaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttcattgatatattttatatttttctttattaatcattgcaatgtttaaccattggagccaaatgtttgatatttgcttaaattctctaattatgaagGTAAGAGGCCAAATTAGTGTATACAGTGGAGGAAGCTTAATCTTTGGGTTGTCTGATTATCCAATTTCTGAGTTTGAGCTTGTTGCAGAAGAGCTTTTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - cattgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gccaaat