Sequence
atgc intronic sequence ATGC exonic sequencegtaaatataccaacctaagtctcttttcatctatgttcttatgttgttgaatatctataattgctatactggtgcagATAATGGATTGCATTGGAGACAATGGACTAGGTGTTGTGGCTGCCACATGTAAAGATTTGCAAGAACTAAGGGTTTTTCCGGTTGTTCGTGTTGGTGGAA
Basic information
species | Glycine max |
transcript | GLYMA16G26200.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26200.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G12820.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaaatataccaacctaagtctcttttcatc-------------tatgttcttatgttg--ttgaatatctataattgctata-ctggtgcagATAATGGATTGCATTGGAGACAATGGACTAGGTGTTGTGGCTGCCACATGTAAAGATTTGCAAGAACTAAGGGTTTTTCCGGTTGTTCGTGTTGGTGGAA
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gtaagtttgttctcactt-tctcttttcactgtcctgaagaaaataaactaacttgctaacctgacaacaaatggtttttatggttcctacagATATTGGATAGTATTGGTGACAAAGGACTTGCGGTTGTCGCTGCCACATGTAAAGAGTTACAAGAGCTTAGAGTTTTTCCCTCTGATGTACATGGTGAAG
upper sequence: GLYMA16G26200.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0068g01330.t01 (Vitis vinifera), 3'ss of exon 3
gtaaata-taccaacctaagtct--cttttcatctatgttcttatgttgttgaa---tatctataattgctat-actggtgcagATAATGGATTGCATTGGAGACAATGGACTAGGTGTTGTGGCTGCCACATGTAAAGATTTGCAAGAACTAAGGGTTTTTCCGGTTGTTCGTGTTGGTGGAA
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gtatgaacttttaacccaactctagcctctgaaagcaatactctttttattgaaatgtatgacaagttcccatgatttatgcagATATTGGATTGCATTGGAGACAAGGGACTAGGAGTTGTCGCTTGTACTTGTAAAGAATTGCAGGAATTGAGGGTTTTTCCTTCTGATCCGTTTGGGGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttcatctatgttcttatgttgttgaatatctataattgctatactggtgcagATAATGGATTGCATTGGAGACAATGGACTAGGTGTTGTGGCTGCCACATGTAAAGATTTGCAAGAACTAAGGGTTTTTCCGGTTGTTCGTGTTGGTGGAA
ttgaatatctataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatataccaacctaagtctcttttcatctatgttcttatgttgttgaatatctataattgctatactggtgcagATAATGGATTGCATTGGAGACAATGGACTAGGTGTTGTGGCTGCCACATGTAAAGATTTGCAAGAACTAAGGGTTTTTCCGGTTGTTCGTGTTGGTGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA