Sequence
atgc intronic sequence ATGC exonic sequencegtaaggctttttcttgggtaaagattctttgttgggctttatcaatttgtgctaatgttttgatgaggtaactttttgaagttaatttttgacaaatgtgaatgctaacgaagccttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAGCATGGACTTTGTTCTCAATATGTACAGGATTTA
Basic information
species | Glycine max |
transcript | GLYMA02G07510.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G07510.2 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 9
gtaaggctttttcttgggtaa--agattctttgttgggctttatcaatttgtgctaatgttttgatgaggtaactttttgaagttaatttttgacaaatgtgaatgctaacgaagccttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAGCATGGACTTTGTTCTCAATATGTACAGGATTTA
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-----------------gtaattaagctaattgcagg----cactaacctaaagcgttgttctttggactt---ctgttcatgccattgcgataataattttttttctaatttaaccttctctgtgt-cacagATGGCGAGATTGAATGAAGGCCTGTCTCTTTTTGATGCAATACTGATTGTTCCAATGTTTCAGATTGCTTGGACCTTTTTTTCTATTTGCACAGGATTTG
upper sequence: GLYMA02G07510.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G144254_T03 (Zea mays), 3'ss of exon 6
gtaaggctttttcttgggtaaagattctttgttgggctttatcaatttgtgctaatgttttgatgaggtaact-ttttgaagttaatttttgacaaatgtgaatgctaacgaagccttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAGCATGGACTTTGTTCTCAATATGTACAGGATTTA
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----------------------------------------gtatggctaacctaatgcgttgttcatgaggctactctgctgctcttatttgtctaattcaactccatatg--------ccctatgtgacagATGGGAAGATTGAATGAAGGGTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATCTGTACAGGATTTG
upper sequence: GLYMA02G07510.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G477146_T02 (Zea mays), 3'ss of exon 9
gtaaggctttttcttgggtaaagattctttgttgggctttatcaatttgtgctaatgttttgatgaggtaactttttgaagttaatttttgacaaatgtgaatgctaacgaagccttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAGCATGGACTTTGTTCTCAATATGTACAGGATTTA
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-----------------gtatggctaacctaatgtgtt------gttcctgaggctactccgctgctgctgttttcctacgtcg----ttgtctaattcaagttccgt--atgccttatgtga-----cagATGGCAAGACTGAATGAGGGGCTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATTTGTACAGGATTTG
upper sequence: GLYMA02G07510.2 (Glycine max), 3'ss of exon 10
lower sequence: AT3G26670.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaaggctttttcttgggtaaagattctttgttgggctttatcaatttgtgctaatgttttgatgaggtaactttttgaagttaatttttgacaaatgtgaatgctaacgaagccttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAGCATGGACTTTGTTCTCAATATGTACAGGATTTA
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-----------------gtaaaaaaaaacc-tcaagct--actgaaatattttggtgctttgttgtgccg-----ttgagactatatagttactgaagtaaaaacgtctttcatgtgcttctgtt--gcagATGACAAGATTGAATGAAGGATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCA
upper sequence: GLYMA02G07510.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv14s0068g00780.t01 (Vitis vinifera), 3'ss of exon 9
gtaaggctttttcttgggtaaagattctttgttgggctttatcaatttgtgctaatgttttgatgaggtaactttttgaagttaatttttgacaaatgtgaatgctaacgaagccttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAGCATGGACTTTGTTCTCAATATGTACAGGATTTA
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-------------------agagagaaaaagaaaaaagaaacaaaaaaaaatcaatgctgcaattggttggac-----atgttaaattttg-caaaca-----actgat-atatattatctccttctgcagATGGCAAGGTTGAACGAAGGGTTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAAATTGCTTGGACTTTCTTCTCTATTTGTACAGGATTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaagttaatttttgacaaatgtgaatgctaacgaagccttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAGCATGGACTTTGTTCTCAATATGTACAGGATTTA
tgctaac putative branch site (score: 1)
ccttttcca putative PPT
ttaatttttgacaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggctttttcttgggtaaagattctttgttgggctttatcaatttgtgctaatgttttgatgaggtaactttttgaagttaatttttgacaaatgtgaatgctaacgaagccttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAGCATGGACTTTGTTCTCAATATGTACAGGATTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA