Sequence
atgc intronic sequence ATGC exonic sequence...cttcccaagcaagaagaaaatgcacatgtcatttgttagcatttgtgagttgagataatggaacaatctttacttatcatgcagtgtttttggctctcagGTTTTTACAGCTGCTGCAGCTGATGAGCGGAAGAATATTGTATTATTAGCATTTGAGACCATGGAGAAAATAGTGCGTCAATTTTTTCCTTATATTACTG
Basic information
species | Glycine max |
transcript | GLYMA14G00230.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G00230.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G365185_T01 (Zea mays), 3'ss of exon 8
------------------------------cttcccaagcaaga--agaaaatgcacatgtcatttgttagcatttgt------gagttgagataatggaacaatct------------ttacttatcatgcagtgtttttggctctcagGTTTTTACAGCTGCTGCAGCTGATGAGCGGAAGAATATTGTATTATTAGCATTTGAGACCATGGAGAAAATAGTGCGTCAATTTTTTCCTTATATTACTG
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gtacgtataatgttctatgcctagttttagtttaccatgacatcttggcataagttcatgtgatctacaattagttgttctcaagaaccaagctagagtgtctttctaaaattgacgattcaatattaacaccatcttatctacttacagGTTTTTACTGCAGCTGCTGCTGATGATCGAAAAAATATTGTTTTGTTGGCATTTGAAACCATGGAAAAGATTGTTCGGGACTATTTCCCTTACATAACTG
upper sequence: GLYMA14G00230.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G38200.1 (Arabidopsis thaliana), 3'ss of exon 8
---------------------------------------------------------------------------cttcccaagcaagaagaaaatgcacatg-----tcatttgttagcattt-gtgagtt----gagataatggaacaatctttacttatcatgcagtgttt--ttggctctcagGTTTTTACAGCTGCTGCAGCTGATGAGCGGAAGAATATTGTATTATTAGCATTTGAGACCATGGAGAAAATAGTGCGTCAATTTTTTCCTTATATTACTG
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gtacagaatgttttcctagcatctgcctgtatgtgaatatacagtatatgattaaggtttaagagaaaaaacgttcaacccaggatagaggatactatgcttagtagtttatctgctcgtgttttgttttttataagacacactctagtggtcgacatgttttactgagtggccagtttcctttcagGTTTTCACAACTGCAGCAGCTGATGAAAGGAAGAACATTGTATTGTTGGCCTTTGAGACGATGGAAAAAATTGTCCGAGAGTACTTTTCATATATCACAG
upper sequence: GLYMA14G00230.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv03s0038g04090.t01 (Vitis vinifera), 3'ss of exon 8
cttcccaagcaagaagaaaatgcacatgtcatttgttagcatttgtgagttgagataatggaacaatctttacttatcatgcagtgtt-tttggctctcagGTTTTTACAGCTGCTGCAGCTGATGAGCGGAAGAATATTGTATTATTAGCATTTGAGACCATGGAGAAAATAGTGCGTCAATTTTTTCCTTATATTACTG
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-ctctagaccagctagctcatgtccatttgaatgcttaagaagtgggtaatgtggcccttgcaaatttcttgcttctcacatgatgctgttctatgttcagGTTTTTACGGCTGCAGCTGCTGATGAAAGGAAGAATATAGTCTTGCTAGCCTTTGAGACCATGGAAAAAATAGTGCGAGAATATTTCCCTTACATAACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagttgagataatggaacaatctttacttatcatgcagtgtttttggctctcagGTTTTTACAGCTGCTGCAGCTGATGAGCGGAAGAATATTGTATTATTAGCATTTGAGACCATGGAGAAAATAGTGCGTCAATTTTTTCCTTATATTACTG
tgttttt CT-rich tract
tttacttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcccaagcaagaagaaaatgcacatgtcatttgttagcatttgtgagttgagataatggaacaatctttacttatcatgcagtgtttttggctctcagGTTTTTACAGCTGCTGCAGCTGATGAGCGGAAGAATATTGTATTATTAGCATTTGAGACCATGGAGAAAATAGTGCGTCAATTTTTTCCTTATATTACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
cttccca
- - - - gcaagaa
- - - - - - - - - - - -acatgtc
- - - - - - - - - - - - - - - - - - - gcatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgca