Sequence
atgc intronic sequence ATGC exonic sequence...cttgtgaagtgatgtagtgaattgctgtttatatattatatagtctgctgaaaatttttggttcatatttgtgtaccatgctgtgaatcaaactatgcagATTGCTCAAAGAAACAGCTTGGATGTTGATGTTGACTTGGCGTTGGGTTTTGCCTCCCATTATGGCAAGATAGGAACTATGGAGTGCTTGGTGGAAGAGG
Basic information
species | Glycine max |
transcript | GLYMA17G00260.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00260.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G44090.2 (Arabidopsis thaliana), 3'ss of exon 3
cttgtgaagtgatgtagtgaattgctgtttatatattatatagtctgctgaaaatttttggttcatatttgtgtaccatg-ctgtgaatcaaacta-tgcagATTGCTCAAAGAAACAGCTTGGATGTTGATGTTGACTTGGCGTTGGGTTTTGCCTCCCATTATGGCAAGATAGGAACTATGGAGTGCTTGGTGGAAGAGG
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------------------------------gtaaatc-taattcttaatgactgcttgcaagttac-tttgtgcaatctaactgaactttttcctggtgcagATTGCTCAAAGGAATAGCTTAGACGTGGATGTTGACTTAGCCCTTGGTTTTGCCTCGCATTATAGTAAAATCGAAACGATGGATTGCCTTGTAGAAGAAG
upper sequence: GLYMA17G00260.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G59910.1 (Arabidopsis thaliana), 3'ss of exon 3
cttgtgaagtgatgtagtgaattgctgtttatatattatatagtctgctgaaaatttttggttcatatttgtgtaccatgctgtgaatcaaactatgcagATTGCTCAAAGAAACAGCTTGGATGTTGATGTTGACTTGGCGTTGGGTTTTGCCTCCCATTATGGCAAGATAGGAACTATGGAGTGCTTGGTGGAAGAGG
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-------------gtaagcttccattcttttgattgcttctagacttatagaaggtctcttttcgtgctcaaatattgtatttc---ctgga----gcagATTGCCCAAAGGAACAGCTTAGATGTTGATGTGGACTTAGCTCTTGGTTTTGCCTCGCATTATTGTAAAATCGGAACAATGAAGTGCCTAGTGGAAGAAG
upper sequence: GLYMA17G00260.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0094g01540.t01 (Vitis vinifera), 3'ss of exon 5
-cttgtgaagtgatgtagtgaattgctgtttatatattatatagtc--tgctgaaaatttttggttcatatttgtgtaccatgctgtgaatcaaactatgcagATTGCTCAAAGAAACAGCTTGGATGTTGATGTTGACTTGGCGTTGGGTTTTGCCTCCCATTATGGCAAGATAGGAACTATGGAGTGCTTGGTGGAAGAGG
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atttagaaattttagtagaactgcatgatagagagggaggataattggtgctgttaaagtttgtctgacattcttattttccattttt--cttggccat-tagATTGCCCAAAGGAACAGCTTGGATGTTGATGTTGACTTGGCTTTGGGCTTTGCTTCACACTATTGCAAGATTGGTACAATGGAGTGTCTAGTGGAAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctgaaaatttttggttcatatttgtgtaccatgctgtgaatcaaactatgcagATTGCTCAAAGAAACAGCTTGGATGTTGATGTTGACTTGGCGTTGGGTTTTGCCTCCCATTATGGCAAGATAGGAACTATGGAGTGCTTGGTGGAAGAGG
aaaattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgtgaagtgatgtagtgaattgctgtttatatattatatagtctgctgaaaatttttggttcatatttgtgtaccatgctgtgaatcaaactatgcagATTGCTCAAAGAAACAGCTTGGATGTTGATGTTGACTTGGCGTTGGGTTTTGCCTCCCATTATGGCAAGATAGGAACTATGGAGTGCTTGGTGGAAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - tgaagtg
- - - - - - tgtagtg
- - - - - - - - - - - tgctgtt
- - - - - - - - - - - - - - - - - - - - - - ctgctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgct