Sequence
atgc intronic sequence ATGC exonic sequencegtaagtaccattctagtttggttattatgcatcaatataagaattactcgtcatgttctctaacgtaattgcttgtatcaactttggcttttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCATGGACTGTATATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
Basic information
species | Glycine max |
transcript | GLYMA15G02220.1 |
intron # | 22 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G02220.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G366146_T01 (Zea mays), 3'ss of exon 17
gtaagtaccattctagtttggttattatgcatcaatataagaattactcgtcatgttctctaacgtaattgcttgtatcaactttggctt--------ttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCATGGACTGTATATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
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-----------gttagttgtttcttcaatcacctttaccgtgatccttttctgtaggattaaaaataat-gcttatgttgttttttctctattcttatttcagAGAATTCCTAGATGGTGGATCTGGTACTACTGGATTTGCCCATTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGCAAGACCCCA
upper sequence: GLYMA15G02220.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 21
gtaagtaccattctagtttggttattatgcat-caatataagaattactcgtcatgttctctaacgtaattgcttgtatcaactttggct-tttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCATGGACTGTATATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
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gtcagt----tgttgtttcaatcaccatccctgcgatccttttcctacctgtaggattaaatagaggactcatgttttttctctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
upper sequence: GLYMA15G02220.1 (Glycine max), 3'ss of exon 22
lower sequence: Vv09s0002g03570.t01 (Vitis vinifera), 3'ss of exon 4
gtaagtaccattctagtttggttattatgcatcaatataagaattactcg---tcatgttctctaacgtaatt---gcttgtatcaac-tttggcttttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCATGGACTGTATATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
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gtaagt-tcattttcctcagtggcatagccactttcatgccttccaaccaacctcatccactacaaactaactcaaacctccattaatgtttaaaatttcagAAAATTCCCAAGTGGTGGATCTGGTACTATTGGATTTGCCCACTAGCATGGACAGTTTACGGGCTGATCGTATCGCAATATGGAGACTTGGAGGACACAA
upper sequence: GLYMA15G02220.1 (Glycine max), 3'ss of exon 22
lower sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 20
gtaagtaccattctagtttggttattatgcatcaatataagaattactcg---tcatgttctctaacgtaatt---gcttgtatcaac-tttggcttttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCATGGACTGTATATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
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gtaagt-tcattttcctcagtggcatagccactttcatgccttccaaccaacctcatccactacaaactaactcaaacctccattaatgtttaaaatttcagAAAATTCCCAAGTGGTGGATCTGGTACTATTGGATTTGCCCAGTAGCATGGACAGTTTACGGGCTGATCGTATCGCAATATGGAGACTTGGAGGACACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaattactcgtcatgttctctaacgtaattgcttgtatcaactttggcttttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCATGGACTGTATATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
ctctaac putative branch site (score: 2)
cttttc putative PPT
taatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtaccattctagtttggttattatgcatcaatataagaattactcgtcatgttctctaacgtaattgcttgtatcaactttggcttttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCATGGACTGTATATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG