Sequence
atgc intronic sequence ATGC exonic sequencegtgtggttggtctgttatgtggttttgaaagccatggtcaagtactattttgattttaactggctcatgtttcttttgtattttctcattaagttgctgccaattgttcttggtagGGCCGCCTATTTGTTTCAGCAAGAATTATTGGATTTCATGCAAATTTGTTTGGACACAAGACAAAATTCTTTTTGCTTTGGGAGGACATTGAAGACATCC
Basic information
species | Glycine max |
transcript | GLYMA07G39920.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39920.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G005195_T02 (Zea mays), 3'ss of exon 5
gtgtggttggtctgttatgtggttttgaaagccatggtcaagtactattttgattttaactggctcatgtttcttttgtattttctcattaagttgctgccaattgttcttggtagGGCCGCCTATTTGTTTCAGCAAGAATTATTGGATTTCATGCAAATTTGTTTGGACACAAGACAAAATTCTTTTTGCTTTGGGAGGACATTGAAGACATCC
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------gtgattacttaagggcatc-----actgttactttacaacaaactaagcataaccttttcatgtca---tcatgcctgagaactaaatcatgtctgcctgtgtt--gcagGGTCGTATTTTTCTATCTCCAAGAATATTTGGGTTTTACACAAATCTTTTTGGCCACAAAACAAAATTCTTCTTTCTTTGGGAAGATATTGAAGACATCC
upper sequence: GLYMA07G39920.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G027665_T01 (Zea mays), 3'ss of exon 5
gtgtggttggtctgttatgtggtt-ttgaaagccatggtcaagtactattttgattttaactggctcatgtttcttttgtattttctcattaagttgctgccaattgttcttggtagGGCCGCCTATTTGTTTCAGCAAGAATTATTGGATTTCATGCAAATTTGTTTGGACACAAGACAAAATTCTTTTTGCTTTGGGAGGACATTGAAGACATCC
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----------tctaatcaacgattacttaagggtat----aactgttactttacaacaaactcaa-cataacctttttattttatcaaactaaatcatgtctgcctgtgtt--gcagGGTCGTCTTTTTCTATCTCCAAGAATATTTGGGTTTTACACAAATATTTTTGGCCACAAAACAAAATTCTTCTTACTTTGGGAAGATATTGAAGACATTT
upper sequence: GLYMA07G39920.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv00s0194g00100.t01 (Vitis vinifera), 3'ss of exon 5
gtgtggttggtctgttatgtggttttgaaagccatggtcaagtactattttgattttaactggctcatgtttcttttgtattttctcattaagttgctgccaattgttcttg-gtagGGCCGCCTATTTGTTTCAGCAAGAATTATTGGATTTCATGCAAATTTGTTTGGACACAAGACAAAATTCTTTTTGCTTTGGGAGGACATTGAAGACATCC
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--------------ttaagctgtctttggagaaattagatatggatatttttgccct--cttacaggtttaaatattgaatgctctt-tacatttgacctcacttgttttcatgcagGGACGGTTGTTTATGTCTGCAAGAATAATTGGGTTCCATGCAAATTTATTTGGCCATAAAACAAAGTTCTTTTTCCTCTGGGAGGACATAGATGACATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggctcatgtttcttttgtattttctcattaagttgctgccaattgttcttggtagGGCCGCCTATTTGTTTCAGCAAGAATTATTGGATTTCATGCAAATTTGTTTGGACACAAGACAAAATTCTTTTTGCTTTGGGAGGACATTGAAGACATCC
ttgttctt CT-rich tract
tttcttttgtatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtggttggtctgttatgtggttttgaaagccatggtcaagtactattttgattttaactggctcatgtttcttttgtattttctcattaagttgctgccaattgttcttggtagGGCCGCCTATTTGTTTCAGCAAGAATTATTGGATTTCATGCAAATTTGTTTGGACACAAGACAAAATTCTTTTTGCTTTGGGAGGACATTGAAGACATCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA