Sequence
atgc intronic sequence ATGC exonic sequence...cactagaagagttttaattttcttaattttcttctttttgtatggagtgtgatgtggaagattgatgtttttttgtttggtgtacgtggatcttcaacagCTAAGGCCGAGTTTGGGGAGAAAGAGTGGTACTTCTTCAGTCCTAGAGACCGGAAGTACCCAAATGGAGCAAGGCCAAACAGGGCAGCAGCTTCAGGGTA
Basic information
species | Glycine max |
transcript | GLYMA02G07700.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G07700.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g07670.t01 (Vitis vinifera), 3'ss of exon 1
---cactagaagagttttaattttcttaattttcttctttttgtatggagtgtgatgtggaagattgatgtt----tttttgtttggtgtacgtggatct-tcaacagCTAAGGCCGAGTTTGGGGAGAAAGAGTGGTACTTCTTCAGTCCTAGAGACCGGAAGTACCCAAATGGAGCAAGGCCAAACAGGGCAGCAGCTTCAGGGTA
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gtttgcttctatatacctacctcattcatatataatccttatcaattaatta-aaaataaaatacttgtattaaaatttgaagttggttttccgatctatgtctgcagGTAAAGCTGTTTTTGGCGAGAAGGAGTGGTATTTTTTCAGTCCTAGAGATCGCAAGTACCCCAATGGACTAAGACCCAACAGAGCTGCTGCGTCAGGCTA
upper sequence: GLYMA02G07700.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S164_33V6.1 (Physcomitrella patens), 3'ss of exon 1
cactagaagagttttaattttcttaattttcttctttttgtatggagtgtgatgtggaagattgatgtttttttgtttggtgtacgtggatcttca---acagCTAAGGCCGAGTTTGGGGAGAAAGAGTGGTACTTCTTCAGTCCTAGAGACCGGAAGTACCCAAATGGAGCAAGGCCAAACAGGGCAGCAGCTTCAGGGTA
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-ccaggcggtgttgcgatatttctgggtagattgagtttaagatgtatttattgtagcacat--acttcgataagattaatgttggtttgctctgacatgcagGGAAGGCAATTTTAGGAGAAGGAGAGTGGTATTTTTTCAGTCCAAGGGACCGGAAGTACCCAAATGGGGCTCGACCCAACCGGGCTGCAGCTTCAGGATT
upper sequence: GLYMA02G07700.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S5_359V6.1 (Physcomitrella patens), 3'ss of exon 1
------cactagaagagttttaattttcttaattttcttctttttgtatggagtgtgatgtggaagattgatgtttttttgtttggtgtacgtggatcttcaacagCTAAGGCCGAGTTTGGGGAGAAAGAGTGGTACTTCTTCAGTCCTAGAGACCGGAAGTACCCAAATGGAGCAAGGCCAAACAGGGCAGCAGCTTCAGGGTA
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tagtatcatctcacaaattgaaggcagcgcc-taaactatccaacataacgattcagttgtaaaatactgag--ctttgagtaaaatgt-catg--tttgctgcagGAAAAGCAATTTTCGGAGAGAGGGAATGGTATTTCTTTAGTCCTAGAGATAGAAAGTACCCTAATGGAGCCAGGCCCAACAGAGCGGCCGCTTCAGGGTAMapped 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|254344527|gb|GR851224.1|GR851224EST: CATCATAGCTGAGGTTGATATCTACAAGTTTGATCCATGGGAGCTACCAG CTAAGGCCGAGTTTGGGGAGAAAGAGTGGTACTTCTTCAGTCCTAGAGACC
genomic: CATCATAGCTGAGGTTGATATCTACAAGTTTGATCCATGGGAGCTACCAGgtttgtctac ... tcttcaacagCTAAGGCCGAGTTTGGGGAGAAAGAGTGGTACTTCTTCAGTCCTAGAGACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtgtgatgtggaagattgatgtttttttgtttggtgtacgtggatcttcaacagCTAAGGCCGAGTTTGGGGAGAAAGAGTGGTACTTCTTCAGTCCTAGAGACCGGAAGTACCCAAATGGAGCAAGGCCAAACAGGGCAGCAGCTTCAGGGTA
gattgat putative branch site (score: 4)
tcttc putative PPT
attgatgttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cactagaagagttttaattttcttaattttcttctttttgtatggagtgtgatgtggaagattgatgtttttttgtttggtgtacgtggatcttcaacagCTAAGGCCGAGTTTGGGGAGAAAGAGTGGTACTTCTTCAGTCCTAGAGACCGGAAGTACCCAAATGGAGCAAGGCCAAACAGGGCAGCAGCTTCAGGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - -ttgtatg
- - - - - - - - - - - - - - - - - - - - - - gagtgtg