Sequence
atgc intronic sequence ATGC exonic sequence...catcaattgatgtagctacttgaaccatcttgtagaatactgcatagatgttgtattattaatttattattgatgtaattgtatgttatgcacatttcagGCAACCCTAGGATCATTCACAGGGATATCAAGTCATCAAACATTCTTTTAGATTTCAATTATGAAGCCAAG
Basic information
species | Glycine max |
transcript | GLYMA01G23180.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G23180.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G028731_T01 (Zea mays), 3'ss of exon 3
----catcaattgatgta-gctacttgaaccatcttgtagaatactgcataga-tgttgtattattaatttattattgatgtaattgtatgttatgcacatttcagGCAACCCTAGGATCATTCACAGGGATATCAAGTCATCAAACATTCTTTTAGATTTCAATTATGAAGCCAAG
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gtaagatgcatgcatggaagctgctt-aattatattagtttgaactactcagaataatggagcttgatcttacttaataaatgtttgcttatcgtacgta-----gGTCATCCAAGGATCATTCACAGGGATATCAAGTCGTCAAACATCTTGCTTGATGACCAGTTTGAGGCTCAG
upper sequence: GLYMA01G23180.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G68690.1 (Arabidopsis thaliana), 3'ss of exon 3
catcaattgatgtagctacttgaaccatcttgtagaatactgcatagatgttgtattattaatttattattgatgtaattgtatg---ttatgcacatt-tcagGCAACCCTAGGATCATTCACAGGGATATCAAGTCATCAAACATTCTTTTAGATTTCAATTATGAAGCCAAG
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-------------------------------gtaagttgttgcttaaccactagtttaaccttttcaatcaaatgctagtctctaaactcttgtctattatcagGTCATCCGCGTATCATTCACAGGGACATCAAGTCGTCTAACATTCTTTTAGAGGACAACTTTGATGCTCGG
upper sequence: GLYMA01G23180.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g02460.t01 (Vitis vinifera), 3'ss of exon 3
--catcaattgatgtagctacttgaaccatcttgtagaatactgcatagatgttgtattattaatttattattga-tgtaattgtatgttatgcacatttcagGCAACCCTAGGATCATTCACAGGGATATCAAGTCATCAAACATTCTTTTAGATTTCAATTATGAAGCCAAG
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tctgacacagaaactactagattgactgttcttgttggcca--agttccttttcataccaatgtctgcatagtaacttttgtcctcttttat-cttatttcagGCCATCCTCGGGTTATTCACAGGGATATTAAGTCTTCAAATATTCTTTTAAATTATAACTTTGAAGCTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatgttgtattattaatttattattgatgtaattgtatgttatgcacatttcagGCAACCCTAGGATCATTCACAGGGATATCAAGTCATCAAACATTCTTTTAGATTTCAATTATGAAGCCAAG
ttgtattattaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catcaattgatgtagctacttgaaccatcttgtagaatactgcatagatgttgtattattaatttattattgatgtaattgtatgttatgcacatttcagGCAACCCTAGGATCATTCACAGGGATATCAAGTCATCAAACATTCTTTTAGATTTCAATTATGAAGCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - -tgatgta
- - - - - - - gctactt
- - - - - - - - - - - - - - - - - - -tactgca
- - - - - - - - - - - - - - - - - - - - - - - gatgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgt