Sequence
atgc intronic sequence ATGC exonic sequencegttgcaaaaggcaattagtacatccatcatcactttttgtaacagtaaaatatgctattggaagtaaatttgctttcttatttctcactttggattggatttgatcaggttatgagcagGCATTCTTGGAAAGACCAAGCAGCACAGCCTAAGGTTAAGTATTTCACTCAGGTCAAGGCCCGGCCACCTACATTTGTTGCGTTTGTGCGTGGGAAGACT
Basic information
species | Glycine max |
transcript | GLYMA07G40160.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G40160.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g12540.2 (Oryza sativa), 3'ss of exon 7
gttgcaaaaggcaattagtacatccatcatcactttttgtaacagtaaaatatgctattggaagtaaatttg-ctttcttatt--tctcactttggattggatttgatcaggttatgagcagGCATTCTTGGAAAGACCAAGCAGCACAGCCTAAGGTTAAGTATTTCACTCAGGTCAAGGCCCGGCCACCTACATTTGTTGCGTTTGTGCGTGGGAAGACT
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--------tgccattctctactttgaccaca--tgtttaaattattgatcgccagtcttttatgtcacttcgacatttacattagtcttcctttgaattccccgtga-cagGTTATGAGCAGACATTCCTGGAAAGACTCAGCTACCCAGCCAAAAGTGAAGTACTTCACTCAGGTGAAAGCACGGCCACCGACGTTCGTTGCCTTTATGA-----------
upper sequence: GLYMA07G40160.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM5G848602_T01 (Zea mays), 3'ss of exon 8
gttgcaaaaggcaattagtacatccatcatcactttttgtaacagtaaaatatgctattg-gaagtaaatttgctttcttatttct--cactttg-gattggatttgatcaggttatgagcagGCATTCTTGGAAAGACCAAGCAGCACAGCCTAAGGTTAAGTATTTCACTCAGGTCAAGGCCCGGCCACCTACATTTGTTGCGTTTGTGCGTGGGAAGACT
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--------tgactgcatg-atgttcaaagttactgactacactggccagtgaagccattgtggcatctatttcgaccattacttctaataccttgtgattgtgctc---tagGTTATGAGCAGACATTCCTGGAAAGATTCAGCTACTCAGCCAAAAGTCAAGTACTTCACTCAAGTGAAGGCACGACCACCAACATTTGTTGCCTTCATGA-----------
upper sequence: GLYMA07G40160.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv16s0022g01890.t01 (Vitis vinifera), 3'ss of exon 8
gttgcaaaaggcaattagtacatccatcatcactttttgtaacagtaaaatatgctattggaagtaaatttgctttcttatttctcactttggattggatttgatcaggttatgagcagGCATTCTTGGAAAGACCAAGCAGCACAGCCTAAGGTTAAGTATTTCACTCAGGTCAAGGCCCGGCCACCTACATTTGTTGCGTTTGTGCGTGGGAAGACT
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-------------gtcagtatgacaataatc-cctttagtcctgcc----catccttcaaatatgcaagttgggttttaatctctc-tttcgctttgcttctctctagGTTATGAGCAGGCATTCTTGGAAAGATCAGGCTGCACAACCCAAGATCAAGTACTTCACCCAGGTGAAGGCTCGGCCCCCAACTTTTGTTGCCTTTATGG-----------
upper sequence: GLYMA07G40160.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0035g02010.t01 (Vitis vinifera), 3'ss of exon 2
gttgcaaaaggcaattagtacatccatcatcactttttgtaacagtaaaatatgctattggaagtaaatttgctttcttatttctcactttggattggatttgatcaggttatgagcagGCATTCTTGGAAAGACCAAGCAGCACAGCCTAAGGTTAAGTATTTCACTCAGGTCAAGGCCCGGCCACCTACATTTGTTGCGTTTGTGCGTGGGAAGACT
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-------------gtaagtatgacaataatctcttttagtc-ctgcccatccttcaaat--atgtaagttgggttt-taatctgtc-tttcactctgcttctctctagGTTATGAGCAGGCATTCTTGGAAAGATCAGGCTGCACAACCCAAGATCAAGTGCTTCACCCAGGTGAAGGCTCGGCCCCCAACTTTTGTTGCCTTTATGG----------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatttgctttcttatttctcactttggattggatttgatcaggttatgagcagGCATTCTTGGAAAGACCAAGCAGCACAGCCTAAGGTTAAGTATTTCACTCAGGTCAAGGCCCGGCCACCTACATTTGTTGCGTTTGTGCGTGGGAAGACT
tttcttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgcaaaaggcaattagtacatccatcatcactttttgtaacagtaaaatatgctattggaagtaaatttgctttcttatttctcactttggattggatttgatcaggttatgagcagGCATTCTTGGAAAGACCAAGCAGCACAGCCTAAGGTTAAGTATTTCACTCAGGTCAAGGCCCGGCCACCTACATTTGTTGCGTTTGTGCGTGGGAAGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA