Sequence
atgc intronic sequence ATGC exonic sequencegtacgtatactttgactgaagttattttaattatggcactactgtgaatcacttttgtttgacaatggtggactggtgggggggtcatgtcatattgaaaggataagtatatttatgatcaattatcactgcaatttctgcctagGTCACTTCAAGGAAATAGATTAACTGGGGAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
Basic information
species | Glycine max |
transcript | GLYMA20G29010.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G29010.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g03970.1 (Oryza sativa), 3'ss of exon 9
gtacgtatactttgactgaagttattttaattatggcactactgtgaatcacttttgtttgacaatggtggactggtgggggggtcatgtcatattgaaaggataagtatatttatgatcaattatcactgcaatttctgcctagGTCACTTCAAGGAAATAGATTAACTGGGGAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
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gtaagtgttcct------gagttattgcaaatc---ctctaacatgtaat-ctgctgtttcactcttatgcat--atag-------atgctttacttacag--------cctttatgttgaaccatttctattcatgtt-catagGTCACTTCAAGGAAATAGACTGACTGGGAAAATTCCAGATGTGATTGGCCTGATGCAAGCTCTTGCTGTTCT
upper sequence: GLYMA20G29010.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G62230.1 (Arabidopsis thaliana), 3'ss of exon 10
gtacgtatactttgactgaagttattttaattatggcactactgtgaatcacttttgtttgacaatggtggactggtgggggggtcatgtcatattgaaaggataagtatatttatgatcaattat-cactgcaatttctgcctagGTCACTTCAAGGAAATAGATTAACTGGGGAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
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------------------------------------------------------------gtgagtattgagcctcttttaccttagtttcatcagtaaattgttaacatgcggttattgaattgtgtattattactttt-tgaagGTCACTTCAAGGAAACAGATTGACGGGTAGAATTCCAGAAGTTATTGGTCTAATGCAGGCTCTTGCTGTTTT
upper sequence: GLYMA20G29010.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 9
gtacgtatactttgactgaagttattttaattatggcactactgtgaatcacttttgtttgacaatggtggactggtgggggggtcatgtcatattgaaaggataagtatatttatgatcaattatcactgcaatttctgcctagGTCACTTCAAGGAAATAGATTAACTGGGGAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
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gtaagctt--tctagtttagatcattc---ttttggaaactggacaaatgaaagttatttacttggggaagagcattgatcaa-tgttgtgaaat--gattggtgacatgatttaagataa---aactcttggttctttaatcagGTCACTCCAAGGAAATAAGCTAACAGGAAAGATTCCAGAGGTGATTGGTCTAATGCAAGCCCTTGCTGTTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catattgaaaggataagtatatttatgatcaattatcactgcaatttctgcctagGTCACTTCAAGGAAATAGATTAACTGGGGAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
tttctgcct CT-rich tract
ataagtatatttatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtatactttgactgaagttattttaattatggcactactgtgaatcacttttgtttgacaatggtggactggtgggggggtcatgtcatattgaaaggataagtatatttatgatcaattatcactgcaatttctgcctagGTCACTTCAAGGAAATAGATTAACTGGGGAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT