Sequence
atgc intronic sequence ATGC exonic sequencegtacaggacctttttatggagtatttttacacataaatctaagattttatgtatgttactcttcccattgtgtagcgtggtttggttgaagcatcaactatgatgtctaagacttatcattgattctagttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTTTGGGTTCCAGAATACGCATGGTTTCCACTCCTCATCTTGTTCCTTGTAT
Basic information
species | Glycine max |
transcript | GLYMA14G07160.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G07160.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 5
gtacaggacctttttatggagtatttttacacataaatctaagattttatgtatgttactcttcccattgtgtagcgtggtttggttgaagcatcaactatgatgtctaagacttatcattgattctagttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTTTGGGTTCCAGAATACGCATGGTTTCCACTCCTCATCTTGTTCCTTGTAT
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------------------------------------------------------------gtaacctgcatatgtcattatgacactgacatttgccctataaggatatttactgactaaaatattttttcctccgaaa-cttcagATTTAGGTCAGGTGTGGGGTTGGGGATATGGAGGAGAAGGGCAACTAGGTTTGGGTTCTAGAATCCGAACTGTTTCTTCTCCCCATCCTGTACCGTGCAT
upper sequence: GLYMA14G07160.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 5
gtacaggacctttttatggagtatttttacacataaatctaagattttatgtatgttactcttcccattgtg------tagcgtggtttggtt-------------gaagc-atcaa----ctatgatgtcta-----agacttatcattgattctagttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTTTGGGTTCCAGAATACGCATGGTTTCCACTCCTCATCTTGTTCCTTGTAT
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--gtaaatccatgaaatcttggattgttgtccctaagcctcagttttaattcatagttctttttctgttgtggttatgcaacataggctggtactcagtatgactagaagccatggaagttctattttgtaaagcaacaaacttaatgttttctattgttccccca-agtttcagATGTTGGACAGGTGTGGGGTTGGGGCTATGGGGGTGAGGGGCAACTAGGTTTGGGTTCCCGGATACGTATGGTATCCTCTCCTCATCCTGTGCCTTGTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catcaactatgatgtctaagacttatcattgattctagttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTTTGGGTTCCAGAATACGCATGGTTTCCACTCCTCATCTTGTTCCTTGTAT
cattgat putative branch site (score: 4)
ttatcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaggacctttttatggagtatttttacacataaatctaagattttatgtatgttactcttcccattgtgtagcgtggtttggttgaagcatcaactatgatgtctaagacttatcattgattctagttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTTTGGGTTCCAGAATACGCATGGTTTCCACTCCTCATCTTGTTCCTTGTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC