Sequence
atgc intronic sequence ATGC exonic sequencegtgacaatgtttatttttatttcttgaaatttctttggaacagaaatggatgggggcattctaattaatgatatttgtgctgctaccagGGAGCTCAGAATAGCTTGTACGTTGGCACAAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG
Basic information
species | Glycine max |
transcript | GLYMA04G43650.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G37130.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os12g10200.1 (Oryza sativa), 3'ss of exon 4
gtgacaatgt--ttattttta---tttcttgaaattt--ctttggaacagaaatggatgggggcattctaattaatgatattt---gtgctgctaccagGGAGCTCAGAATAGCTTGTACGTTGGCACAAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG
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gtgataacctagcaagctttaaaatattttgacatttaccatggcatcagcatatcctaattatcctttgacttgcccttttccggatgctataatcagGGAACTAAGAATAGCTTGTACAATTGCTCAAATGGAGCGTGAGGGTGGCATCAGTCCCCGAATGTCACCTTTAGCACAA
upper sequence: GLYMA12G37130.2 (Glycine max), 3'ss of exon 6
lower sequence: AT1G22800.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgacaatgtttatttttatttc---ttgaaatttctt-tggaacaga--aatggatgggggcattctaattaatg-----atatttgtgctgct-accagGGAGCTCAGAATAGCTTGTACGTTGGCACAAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG
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--gtttgtcctctctttcatttcaaatcaatactcaatgtagagtctcttattccatatcatgtttctgattagcctttacgtattgaaattatttacaagGGAGCTGAGAATAGCATGCACTTTGGCTCACATGGAGCGGGAAGGAGGGATTAGTCCTCGGCTATCACCTTTGGCACAG
upper sequence: GLYMA12G37130.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0001g06830.t01 (Vitis vinifera), 3'ss of exon 6
gtgacaatgtttatttttatttcttgaaatttctt-tggaacagaaatgga-tgggggcattctaattaatgatatttgtgctgctaccagGGAGCTCAGAATAGCTTGTACGTTGGCACAAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG
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gtagtt-tattcacttgtttttcttcaaatctagtatagtatttcaatgcactaaaggcctaagtgttttttccatttttcttgtgattagGGAGCTGAGAATAGCATGTACTGTAGCACAAATGGAGCGTGAAGGGGGCATAAGTCCACGAGTATCACCATTGGCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggaacagaaatggatgggggcattctaattaatgatatttgtgctgctaccagGGAGCTCAGAATAGCTTGTACGTTGGCACAAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG
attctaattaatgata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgacaatgtttatttttatttcttgaaatttctttggaacagaaatggatgggggcattctaattaatgatatttgtgctgctaccagGGAGCTCAGAATAGCTTGTACGTTGGCACAAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG