Sequence
atgc intronic sequence ATGC exonic sequence...ctactcctgccttcttgagtttgaaatttgcggaaaagtttgcagttagaagcaaaattactgaaaaacctctataatgttagtgcatttttgttttcagGAATGGGTGACAGATAGTCCATTCATAATATCACCTAGAATTACTTTTGAAGTCAGCGTGCGCCTTCTTGGAGGGCTGATGGCCTTGGGATACACAATTG
Basic information
species | Glycine max |
transcript | GLYMA05G07610.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G07610.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g47860.2 (Oryza sativa), 3'ss of exon 6
---ctactcctgccttcttgagtttgaaatttgcggaaaagtttgcagttagaagcaaaattactgaaaaacctctataatg-ttagtgcattt--ttgttttcagGAATGGGTGACAGATAGTCCATTCATAATATCACCTAGAATTACTTTTGAAGTCAGCGTGCGCCTTCTTGGAGGGCTGATGGCCTTGGGATACACAATTG
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agcttagatatatactcctttgctataccttattatcata--tcgtattt----gcaataattttgaaatttgtgttcactaacttgtgttattgataatttgaagGAGTGGGTGACCGATAATCCTTTTATCATATCACCAAGGATTACGTTTGAAGTCAGTGTTCGTCTTCTTGGAGGTTTGATGGCATTGGGATATACTATAG
upper sequence: GLYMA05G07610.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 6
ctactcctgccttcttgagtttgaaatt-tgcggaa-aagtttgcagttagaagcaaaattactgaaaaacctctataatgttagtgcatttt-tgttttcagGAATGGGTGACAGATAGTCCATTCATAATATCACCTAGAATTACTTTTGAAGTCAGCGTGCGCCTTCTTGGAGGGCTGATGGCCTTGGGATACACAATTG
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ctgctacttgtttctattgtccgtgactacatgcaataaacaaacccttgctggcag---ccctggtgttcactaactctcttattccattctgtgttcaaagGAATGGGTGACCGACAATTCTTTTATCATATCACCAAGGATCACTTTTGAAGTCAGTGTTCGTCTTCTTGGTGGTTTGATGGCATTGGGATATACTATAG
upper sequence: GLYMA05G07610.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G73980.1 (Arabidopsis thaliana), 3'ss of exon 6
-------ctactcctgccttcttgagtttgaaatttgcggaaaagtttgcagttagaagcaaaattactgaaaaacctctataatg-----ttagtgcatttt-tgttttcagGAATGGGTGACAGATAGTCCATTCATAATATCACCTAGAATTACTTTTGAAGTCAGCGTGCGCCTTCTTGGAGGGCTGATGGCCTTGGGATACACAATTG
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gtttggccaatacctgtccagactagtttttcttctgtaaacaccatatcatatcaaagctgaacgaatggtttattaatttgatgaatgattaccgttctatgtgttcttagGAGTGGGTTACAGATCGTCCATTTATTATATCACCCAGAATAACTTTTGAAGTTAGTGTTCGTCTTCTTGGAGGATTAATGGCACTGGGTTATACCATTG
upper sequence: GLYMA05G07610.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv17s0000g04650.t01 (Vitis vinifera), 3'ss of exon 5
ctactcctgccttcttgagt-----ttgaaatttgcggaaaagtttgcagt-tagaagcaaaattactgaaaaacctctataatgttagtgcatttttgttttcagGAATGGGTGACAGATAGTCCATTCATAATATCACCTAGAATTACTTTTGAAGTCAGCGTGCGCCTTCTTGGAGGGCTGATGGCCTTGGGATACACAATTG
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---tttgtgttttgctgaataatcttttaaagtagaagaaatgcagacgatgctggggtgagggtgaaacgaaatctct-tctcaatactgtactt--gttttcagGAATGGGTTACAGATAGTCCGTTCATCATTTCACCAAGAATAACTTTTGAAGTTAGTGTCCGCCTTCTTGGTGGCCTGATGGCCTTGGGGTACACAATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagaagcaaaattactgaaaaacctctataatgttagtgcatttttgttttcagGAATGGGTGACAGATAGTCCATTCATAATATCACCTAGAATTACTTTTGAAGTCAGCGTGCGCCTTCTTGGAGGGCTGATGGCCTTGGGATACACAATTG
tttttgttttc CT-rich tract
aaaattactgaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctactcctgccttcttgagtttgaaatttgcggaaaagtttgcagttagaagcaaaattactgaaaaacctctataatgttagtgcatttttgttttcagGAATGGGTGACAGATAGTCCATTCATAATATCACCTAGAATTACTTTTGAAGTCAGCGTGCGCCTTCTTGGAGGGCTGATGGCCTTGGGATACACAATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - tcctgcc
- - - - - - - - gagtttg
- - - - - - - - - - - - - - - - - - - - tgcagtt
- - - - - - - - - - - - - - - - - - - - - - - - -aagcaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcattt