Sequence
atgc intronic sequence ATGC exonic sequencegtagtgttttgaccatggatatcccctggaattttccgagttatttgtgttggaaagtaactcctacccagggaaatcatagctatatatttattggtcacagaatcctctctttcaaaagtacgttgtgcaaatcaagctatttgatctttgaataactgttgaacatttttttggtgttattccaagGAAAAACCAAATGATGCTGATGTTTTTCGTTTGCTTGGAGAAGTTAAGTACGAACTCAAAGATTATGAAGGGAGTGTTGCCGCATATAAAAGCTCAGCAA
Basic information
species | Glycine max |
transcript | GLYMA08G24110.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G24110.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G863152_T01 (Zea mays), 3'ss of exon 9
gtagtgttttgaccatggatatcccctggaattttccgagttatttgtgttggaaagtaactcctacccagggaaatcatagctatatatttattggtcacagaatcctctctttcaaaagtacgttgtgcaaatcaagctatttgatctttgaataactgttgaacatttttttggtgttattccaagGAAAAACCAAATGATGCTGATGTTTTTCGTTTGCTTGGAGAAGTTAAGTACGAACTCAAAGATTATGAAGGGAGTGTTGCCGCATATAAAAGCTCAGCAA
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----------------------------------------------------------------------------------------gtttgctaattgttcgctccttgttatcat---ttagttg-gtctgtcaaccttatggaattattatcctgtataaaatacatattctacttgatgc--agGTAATCCCTGATAAAGCAGAAGCATACCGTTTGCTTGGTGAAGTAAAGTTTGAACTCAAGGATTATGAAGGGAGTTCATCATCATACAGAAGTGCTTTAT
upper sequence: GLYMA08G24110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g00720.t01 (Vitis vinifera), 3'ss of exon 9
gtagtgttttgaccatggatatcccctggaattttccgagttatttgtgttggaaagtaactcctacccagggaaatcatagctata-tatttattggtcacagaatcctctctttcaaaagtacgttgtgcaaatcaagctatttga----tctttgaataactgttgaac--atttttttggtgttattcca-agGAAAAACCAAATGATGCTGATGTTTTTCGTTTGCTTGGAGAAGTTAAGTACGAACTCAAAGATTATGAAGGGAGTGTTGCCGCATATAAAAGCTCAGCAA
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-------------------------------------------------------------------gtttgtccttcactgatttagcatgcattagatatatgatgaactccatgtaccatatgctgcttatatcaagatgttcaggaatttcttgagtcaatttttatttgattgatgtataacaatcctacagGAAAAGCCAAATGATCCTGAAGCTTTCCGTCTGCTTGGAGAAGTAAAATTTGCACTAAAGGATTATGAAGGCAGTGCTGCCGCATATAGGAGTTCTGCTAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|13312854|gb|BG406505.1|BG406505EST: AACTAGGGGAATATGCAAGAGCTTCTTCTCTACTTGATGATTTGACAAAG GAAAAACCAAATGATGCTGATGTTTTTCGTTTGCTTGGAGAAGTTAAGTAC
genomic: AACTAGGGGAATATGCAAGAGCTTCTTCTCTACTTGATGATTTGACAAAGgtagtgtttt ... ttattccaagGAAAAACCAAATGATGCTGATGTTTTTCGTTTGCTTGGAGAAGTTAAGTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaagctatttgatctttgaataactgttgaacatttttttggtgttattccaagGAAAAACCAAATGATGCTGATGTTTTTCGTTTGCTTGGAGAAGTTAAGTACGAACTCAAAGATTATGAAGGGAGTGTTGCCGCATATAAAAGCTCAGCAA
gaataac putative branch site (score: 2)
ttattcc putative PPT
ttgaacattttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtgttttgaccatggatatcccctggaattttccgagttatttgtgttggaaagtaactcctacccagggaaatcatagctatatatttattggtcacagaatcctctctttcaaaagtacgttgtgcaaatcaagctatttgatctttgaataactgttgaacatttttttggtgttattccaagGAAAAACCAAATGATGCTGATGTTTTTCGTTTGCTTGGAGAAGTTAAGTACGAACTCAAAGATTATGAAGGGAGTGTTGCCGCATATAAAAGCTCAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA