Sequence
atgc intronic sequence ATGC exonic sequence...attaagacttttttttttcttttatttcctgattgatattttatttgtgtactgattttttttccttttttctctctatcaaaatatgattatgaactagCTGGTGTTGCAAGTGGTGCCACTAGAGCAGCTTTGACTCAGCATTTTGCTCTTCAGGATAATGCTGCAGATATATCTGCAAAG
Basic information
species | Glycine max |
transcript | GLYMA01G07190.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G07190.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g11500.1 (Oryza sativa), 3'ss of exon 8
attaagacttttttttttcttttatttcctgattgatattttatttgtgtactgattttttttccttttttctctctatcaaaatatgattatgaactagCTGGTGTTGCAAGTGGTGCCACTAGAGCAGCTTTGACTCAGCATTTTGCTCTTCAGGATAATGCTGCAGATATATCTGCAAAG
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-gtaag-cggatttacatgatgaatttcataacct---tttaaattttcttttaaaatgtttgttcgttaactaattatttgactatctgtat-----agCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCGTTAACCCAGCATTTTGCACTTGCCAATAATGCAGCTGATATATCTGCAAAG
upper sequence: GLYMA01G07190.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G846548_T01 (Zea mays), 3'ss of exon 8
attaagacttttttttttcttttatttcctgattgatattttatttgtgtactgattttttttccttttttctctctatcaaaatatgattatgaactagCTGGTGTTGCAAGTGGTGCCACTAGAGCAGCTTTGACTCAGCATTTTGCTCTTCAGGATAATGCTGCAGATATATCTGCAAAG
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-----------gtaagtttttgaattttagaagtcagaactcat--gttgatgaacttcctgaggttattgggggctaatttattgtttctatgttctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCACTTGCAAATAATGCAGCTGATATTTCTGCAAAG
upper sequence: GLYMA01G07190.2 (Glycine max), 3'ss of exon 8
lower sequence: AT1G13770.2 (Arabidopsis thaliana), 3'ss of exon 7
attaagacttttttttttcttttatttcctgattgatattttatttgtgtactgattttttttccttttttctctctatcaaaatatgattatgaactagCTGGTGTTGCAAGTGGTGCCACTAGAGCAGCTTTGACTCAGCATTTTGCTCTTCAGGATAATGCTGCAGATATATCTGCAAAG
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gtgcgtatcatttcttgcatcaaacattgaagttaagacttcggtt-tggattgataca---tcggtttttaacttttttcaatcttggctat----tagCTGGTGTTGCAAGTGGAGCAACCAGAGCAGCTCTAACACAGCACTTTGCTCTTCAAGACAATGCAGCGGATATATCTGCTAAG
upper sequence: GLYMA01G07190.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0011g00500.t01 (Vitis vinifera), 3'ss of exon 8
-attaagacttttttttttcttttatttcctgattgatattttatttgtgtactgattttttttccttttttctctctatcaaaatatgattatgaactagCTGGTGTTGCAAGTGGTGCCACTAGAGCAGCTTTGACTCAGCATTTTGCTCTTCAGGATAATGCTGCAGATATATCTGCAAAG
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tattgtcagtggaattgaaaatacttctgctgaataagaata-atgcacattgtgttgatatttctcatcaaaaatctaattttacactcttcaaaattagCTGGTGTTGCAAGTGGAGCAACTAGAGCTGCATTGACACAACATTTTGCTCTTCAAAATAATGCTGCAGATATATCTGCCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgtactgattttttttccttttttctctctatcaaaatatgattatgaactagCTGGTGTTGCAAGTGGTGCCACTAGAGCAGCTTTGACTCAGCATTTTGCTCTTCAGGATAATGCTGCAGATATATCTGCAAAG
tactgat putative branch site (score: 2)
attttttttccttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attaagacttttttttttcttttatttcctgattgatattttatttgtgtactgattttttttccttttttctctctatcaaaatatgattatgaactagCTGGTGTTGCAAGTGGTGCCACTAGAGCAGCTTTGACTCAGCATTTTGCTCTTCAGGATAATGCTGCAGATATATCTGCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG