Sequence
atgc intronic sequence ATGC exonic sequenceGTTATCTATACAGATGTTGCATTAGATCCTTATTCATCAGATGGGCATGATGGCATAGTTAGAGAAGATGgtatgctatcaaatttgtcttttatactcaaagttggaaatctcttgagaaaaatgcagaagtataggtttttatagttgattctctttatatttgaatc...
Basic information
species | Glycine max |
transcript | GLYMA04G42670.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G42670.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os06g49110.1 (Oryza sativa), 5'ss of exon 7
GTTATCTATACAGATGTTGCATTAGATCCTTATTCATCAGATGGGCATGATGGCATAGTTAGAGAAGATGgtatgctatcaaatttgtcttttatactcaaagttggaaatctcttgagaaaaatgcagaagtataggtttttata-gttgattctcttt--atatttgaatc----
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GTTGTCTACACGGATGTTGCTCTGGACCCTTATTCATCTGATGGTCATGATGGCATTGTCAGGGAAGATGgtaaggaaa-atggtcaccttttgaccttgcact-----gcttttagagcgagaaacatatg-gcatgtttttatccactgcttgtgttttgatgatagcatgggga
upper sequence: GLYMA04G42670.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv18s0001g02550.t01 (Vitis vinifera), 5'ss of exon 6
GTTATCTATACAGATGTTGCATTAGATCCTTATTCATCAGATGGGCATGATGGCATAGTTAGAGAAGATGgtatgctatcaaatttgtcttttatactcaaagttggaaatctcttgagaaaaatgca---gaagtataggtttttatagttgattctctttatatttgaatc
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GTTATCTACACTGATGTTGCTTTAGATCCGTATTCCTCTGATGGGCATGATGGTATTGTCAGAGAAGATGgtaagacat-attttcaacttttacaagtgcaaggatattacatttggatcatttgtattcaacgtgtatgctttcatgcacccttctattaaggactttt--
upper sequence: GLYMA04G42670.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S450_21V6.2 (Physcomitrella patens), 5'ss of exon 6
GTTATCTATACAGATGTTGCATTAGATCCTTATTCATCAGATGGGCATGATGGCATAGTTAGAGAAGATGgtatgctatcaaatttgtcttttatactcaaagttggaaatctcttgagaaaaatgcagaagtataggtttttatagttg-----attctctttatatttgaatc---
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GTGATTTACACAGATGTGGCGCTAGATCCTTACTCTTCAGATGGTCACGATGGCATAGTTCGGGAAGACGgtatataat---atttga-ttttagaatcatcgttt----tctgtattaaatgttgaccatttttccgctctcatatgtgtcgctagtctctggcgacttgtgctgccMapped 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|7693203|gb|AW761299.1|AW761299EST: ATTAGATCCTTATTCATCAGATGGGCATGATGGCATAGTTAGAGAAGATG GAGTTATTATGAATGATGAGACAGTTCATCAGCTATGTAAACAAGCTGTAG
genomic: ATTAGATCCTTATTCATCAGATGGGCATGATGGCATAGTTAGAGAAGATGgtatgctatc ... tattctgcagGAGTTATTATGAATGATGAGACAGTTCATCAGCTATGTAAACAAGCTGTAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTATCTATACAGATGTTGCATTAGATCCTTATTCATCAGATGGGCATGATGGCATAGTTAGAGAAGATGgtatgctatcaaatttgtcttttatactcaaagttggaaatctcttgagaaaaatgcagaagtataggtttttatagttgattctctttatatttgaatc
- - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagaaaaa