Sequence
atgc intronic sequence ATGC exonic sequencegttattttgaacttaataccttatcttgttttttagttgttcatagagttcatctgcctgagaaaatatatatacacctaacctttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTAGAAGCACCCCCATCATGGGCTCCAGATGCACTTGACGCTGCTGTG
Basic information
species | Glycine max |
transcript | GLYMA10G36600.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G36600.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g08700.3 (Oryza sativa), 3'ss of exon 9
gttattttgaacttaataccttatcttgttttttagttgttcatagagttcatctgcctgagaaaatatatatacacctaacctttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTAGAAGCACCCCCATCATGGGCTCCAGATGCACTTGACGCTGCTGTG
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------------gtaagctcttatgatcctgtccactgttgtaccatgtgtactttcc-aaatgattgctaacatgctatttttcgtcagATACTATGCAATTGCTACTCCAAGTGCTACCCAAAGGTTGCTTTTTGGTCTTCTCGAGGCACCACCATCATGGGCCCCAGATGCACTTGATGCAGCAGTA
upper sequence: GLYMA10G36600.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G844173_T01 (Zea mays), 3'ss of exon 8
gttattttgaacttaataccttatcttgttttttagttgttcatagagttcatctgcctgagaaaatatatatacacctaacctttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTAGAAGCACCCCCATCATGGGCTCCAGATGCACTTGACGCTGCTGTG
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-----------------gtaatctccagttcact-gctatgctttca-tctacttccagataaaattttaaatgggttattttttcccagATATTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTCGAAGCACCTCCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
upper sequence: GLYMA10G36600.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 9
gttattttgaacttaataccttatcttgttttttagtt-gttcatagagttcatctgcctgagaaaatatatatac----acctaacctttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTAGAAGCACCCCCATCATGGGCTCCAGATGCACTTGACGCTGCTGTG
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-------------------------gtaagctccagttcactgctatgcttaatccacttcaagatatttttttagtgggatcttttcctttcagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
upper sequence: GLYMA10G36600.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G22770.1 (Arabidopsis thaliana), 3'ss of exon 7
-------------------------------gttattttgaacttaataccttatcttgttttttagttgt---tcatagagttcatctgcctgagaaaatat---atatacacctaacctttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTAGAAGCACCCCCATCATGGGCTCCAGATGCACTTGACGCTGCTGTG
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gtattgtttctgggcttaccctttcaattagggtttattggtagtagtctgttg-ctagttttaaggttgtgcttcctcgaatccctagatcagaattgttttctcactttcctgttatactgtcagATACTATGCCATTGCAACTCCAAGTGCTACGCAGAGACTTCTTCTTGGACTCTTAGAAGCACCACCGTCGTGGGCTCCAGATGCACTTGATGCTGCTGTA
upper sequence: GLYMA10G36600.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 9
--------------------------gttattttgaacttaataccttatcttgttttttagttgttcatagagttcatctgcctgagaaaatatat------------atacacctaacctttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTAGAAGCACCCCCATCATGGGCTCCAGATGCACTTGACGCTGCTGTG
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gtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtggtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgttcatagagttcatctgcctgagaaaatatatatacacctaacctttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTAGAAGCACCCCCATCATGGGCTCCAGATGCACTTGACGCTGCTGTG
acctaac putative branch site (score: 2)
cctttgc CT-rich tract
tgagaaaatatatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattttgaacttaataccttatcttgttttttagttgttcatagagttcatctgcctgagaaaatatatatacacctaacctttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTAGAAGCACCCCCATCATGGGCTCCAGATGCACTTGACGCTGCTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT