Sequence
atgc intronic sequence ATGC exonic sequenceTACGTGAATCTTCAACTGAATCCCGAAAGATATACTGGTTATACTGGTCCATCAGCAAGAAGGATATGGGATGCTGTCTACTCAGAGAACTGCCCCAAATgtaagttttctctgaaaagcttatgcactttaatctccccttcctcaatcccttccccaaaaaaatgaaaacaatgaatcaaagttttgctcctgtagcg...
Basic information
species | Glycine max |
transcript | GLYMA09G10830.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G10830.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G108115_T01 (Zea mays), 5'ss of exon 4
TACGTGAATCTTCAACTGAATCCCGAAAGATATACTGGTTATACTGGTCCATCAGCAAGAAGGATATGGGATGCTGTCTACTCAGAGAACTGCCCCAAATgtaag------ttttctctgaaaagcttatgcactttaatctccccttcctcaatc--ccttccccaaaaaaatgaaaacaatgaatcaaagttttgctcctgtagcg
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TACGTGAATCTTCAACTGAATCCTGAACGATACACTGGCTATACTGGTGATTCAGCAAGAAGAATATGGGACGCTATTTACAAAGAGAACTGTCCAAAATgtatgcaaatgtgctctttcacatgcttgttccgctttagttatactgttttgatcgacaatgtcaagtgtcattaataatttgcatctgagct--gcttat------
upper sequence: GLYMA09G10830.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G521844_T01 (Zea mays), 5'ss of exon 4
TACGTGAATCTTCAACTGAATCCCGAAAGATATACTGGTTATACTGGTCCATCAGCAAGAAGGATATGGGATGCTGTCTACTCAGAGAACTGCCCCAAATgtaag------ttttctctgaaaagcttatgcactttaatctccccttcctcaatcccttccccaaaaaaatgaaaacaatgaatcaaagttttgctcctgtagcg
||||||||||||||||||||||| ||| |||| ||||| ||||| ||| |||||||| ||||||||||||||| | || ||||||||| || ||||||| | | ||| | | | |||| | | || | | || | ||| || | || ||| | |||| |
TACGTGAATCTTCAACTGAATCCTGAACGATACACTGGCTATACCGGTGATTCAGCAAGGAGGATATGGGATGCTATTTATAAAGAGAACTGTCCAAAATgtatgaaaatgtgctctttcacatgcttgttccgctttagttatactagtttgatcaaccatgttaagtgttaccaataatttgcatccgagctgcttat------
upper sequence: GLYMA09G10830.2 (Glycine max), 5'ss of exon 4
lower sequence: AT2G38960.3 (Arabidopsis thaliana), 5'ss of exon 4
TACGTGAATCTTCAACTGAATCCCGAAAGATATACTGGTTATACTGGTCCATCAGCAAGAAGGATATGGGATGCTGTCTACTCAGAGAACTGCCCCAAATgtaagttttctc----tgaaaagcttatgcactttaatctccccttcctcaatccctt---ccccaaaaaaatgaaaacaatgaatcaaagttttg-ctcctgtagcg----------------
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TATGTTAATCTTCGGCTTAATCCTGAACGGTACACTGGCTATATTGGCCCATCAGCTAGAAGGATATGGGAAGCTATATACTCTGAGAACTGTCCCAAACgtaagcttcaccatattaaagtgtttcttgttttctctatttgtttctttatactcttattctccaagtggctgattaattcatatggctgtcttaactcctgcaattatactggcttctatag
upper sequence: GLYMA09G10830.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv10s0003g03950.t01 (Vitis vinifera), 5'ss of exon 4
TACGTGAATCTTCAACTGAATCCCGAAAGATATACTGGTTATACTGGTCCATCAGCAAGAAGGATATGGGATGCTGTCTACTCAGAGAACTGCCCCAAATgtaagttttctctgaaaagcttatgcactttaatctccccttcctcaatcccttccccaaaaaaatgaaaacaatgaatcaaagttttgctcctgtagcg-
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TATGTGAATCTTCAACTGAACCCTGAACGCTACACTGGATATACTGGTCCATCTGCACGAAGGATATGGGATGCTATTTATACTGAGAATTGTCCAAAATgtgagttcttattgtctgccatat-catgatggataatattgtttctcttctcttatgaaagtatctatgtttgtttatttagttatttcaatttcttcatMapped 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|209720049|gb|BW659448.1|BW659448EST: ATCAGCAAGAAGGATATGGGATGCTGTCTACTCAGAGAACTGCCCCAAAT ATCCATCTCAAGAGTTATGCCAT
genomic: ATCAGCAAGAAGGATATGGGATGCTGTCTACTCAGAGAACTGCCCCAAATgtaagttttc ... tcttctgtagATCCATCTCAAGAGTTATGCCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TACGTGAATCTTCAACTGAATCCCGAAAGATATACTGGTTATACTGGTCCATCAGCAAGAAGGATATGGGATGCTGTCTACTCAGAGAACTGCCCCAAATgtaagttttctctgaaaagcttatgcactttaatctccccttcctcaatcccttccccaaaaaaatgaaaacaatgaatcaaagttttgctcctgtagcg
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaacaa