Sequence
atgc intronic sequence ATGC exonic sequenceTCTAACTGGCAACAAAACGTACCAAGAATGGGGTTGGAATATATTTCAAGCTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGATgtaagcaaacctcaatttcacatctaataatgtgtttttgtttacattattattgtttctgtgtaaagtacatcctatcaaaagttagatcatttgttct...
Basic information
species | Glycine max |
transcript | GLYMA07G02290.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G02290.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os04g51690.1 (Oryza sativa), 5'ss of exon 13
TCTAACTGGCAACAAAACGTACCAAGAATGGGGTTGGAATATATTTCAAGCTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGATgtaagcaaacctcaatttcacatctaataatgtgtttttgtttacattattattg--tttctgtgtaaagtacatcctatcaaaagttagatcatttgttct----
||| || || |||||||| |||||||| ||||| ||| | ||||| || || ||||| ||||||||||| ||||| || || || ||||| |||| ||||||||| | |||| | | ||| | | | ||| ||| | || |||||| | | | || | || |||| |||
TCTTACGGGGAACAAAACATACCAAGACTGGGGGTGGGACATATTCCAGGCATTTGAAAAGAACTCCCGCATAGAATCTGGTTACGTTGGGCTGAGAGATgtaagctttttttaattgtttttatgata--gcatccatacttaaattcccactgagcgctagtgtaagacttacacaaattcttgtcaaatattttggtctccag
upper sequence: GLYMA07G02290.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G130889_T03 (Zea mays), 5'ss of exon 9
TCTAACTGGCAACAAAACGTACCAAGAATGGGGTTGGAATATATTTCAAGCTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGATgtaagcaaacctcaatttcacatctaataatgtgtttttgtttacattattattgtttctgtgtaaagtacatcctatcaaaagttagatcatttgttct
| || || || ||||| |||||||| ||||| ||| | ||||| || || ||||||||||||||||| ||||| || || ||||| ||||||| |||||| | | ||||| | || |||| | || ||| || | | || ||| | || || | | | || | | || |
CTTGACGGGGAATAAAACATACCAAGATTGGGGGTGGGACATATTCCAGGCATTTGAGAAGAACTCCCGCATAGAATCTGGATATGTGGGACTGAGAGATgtagg-attcctca---tgacttctattgttgaatttctgctgag-----taacatttgtctgacaactgt----tcttggaacatttgcctttag----
upper sequence: GLYMA07G02290.1 (Glycine max), 5'ss of exon 12
lower sequence: AT3G21160.1 (Arabidopsis thaliana), 5'ss of exon 13
TCTAACTGGCAACAAAACGTACCAAGAATGGGGTTGGAATATATTTCAAGCTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGATgtaagc-------aaac-ctcaatt-----tcacatc-taataat----gtgtttttgtttacattattattgtttctgtgtaa--agtacatcctatcaaaagttagatcatttgttct---------------
||||||| ||||| || || ||||| ||||| |||||||||||| |||| |||||||||||||| || |||||||| || |||||||| ||||||||||||| | | || |||| ||| | | || ||| || ||| || ||| ||| | | | | | | || | | | ||||| || ||||
GTTAACTGGAAACAAGACATATCAAGAGTGGGGATGGAATATATTTGAAGCATTTGAGAAGAACTCGCGCATAGAGTCTGGATATGTTGGTTTGAAGGATgtaagttttccgtaggcgcttaattagatcctgcattgttaaaaccttggtgaattgaattatatcattccaccatctatattagtaattgagtgtaactgatggtagattcttatttctttcaatcatttccag
upper sequence: GLYMA07G02290.1 (Glycine max), 5'ss of exon 12
lower sequence: AT1G51590.1 (Arabidopsis thaliana), 5'ss of exon 13
TCTAACTGGCAACAAAACGTACCAAGAATGGGGTTGGAATATATTTCAAGCTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGATgtaag---caaacctcaatt-tcacatctaataatgtgtttttgtttacattattattgtttctgtgtaaagtacatcctatcaaaagttagatcatttgttct---
||||||| ||||| || || ||||| ||||| ||||||||||||||||| |||||||||||||| || |||| || || ||||| || ||||||||||||| | | || | | | | ||| | | | | | || ||| | || || | | || ||| | | || || |
ATTAACTGGGAACAAGACATATCAAGAGTGGGGATGGAATATATTTCAAGCATTTGAGAAGAACTCTCGCGTAGAATCTGGATATGTAGGCTTGAAGGATgtaagtttcgagccgggctgaccttaaccaatcagataccctcctcgagtgggcctttccatctttcggaaacacgttgtt---aacgtttgcttcttcattttcag
upper sequence: GLYMA07G02290.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv09s0054g00230.t01 (Vitis vinifera), 5'ss of exon 8
TCTAACTGGCAACAAAACGTACCAAGAATGGGGTTGGAATATATTTCAAGCTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGATgtaagcaaacc--tcaatttcaca----tctaataatgtgtttttg-tttacattattattgtttctgtgtaaagtacatcctatcaaaagttagatcatttgttct
| ||||||||| ||| || |||||||| ||||||||||| ||||||||||| ||||| ||||||||||| ||||||||||| ||||||||||||||||||||||| | || |||| |||| ||| | | | || ||| |||| ||| | ||| | | || | | ||| ||||| |||
TTTAACTGGCAGCAAGACATACCAAGAGTGGGGTTGGAACATATTTCAAGCATTTGAAAAGAACTCCCGCATAGAGTCAGGATATGTTGGACTGAAGGATgtaagtacactcttcaaactcactaatccctacttcagactggctgatttgcatttttagtatttacttttgaactttgattcctgaaatcttagaacat-------
upper sequence: GLYMA07G02290.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv09s0054g00370.t01 (Vitis vinifera), 5'ss of exon 13
TCTAACTGGCAACAAAACGTACCAAGAATGGGGTTGGAATATATTTCAAGCTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGATgtaagcaaacc--tcaatttcaca----tctaataatgtgtttttg-tttacattattattgtttctgtgtaaagtacatcctatcaaaagttagatcatttgttct
| ||||||||||||| || |||||||| ||||||||||| ||||||||||| ||||| ||||||||||| ||||||||||| || |||||||||||||||||||| | || |||| |||| ||| | | | || || |||| ||| ||| | | || | | ||| ||||| ||
TTTAACTGGCAACAAGACATACCAAGAGTGGGGTTGGAACATATTTCAAGCATTTGAAAAGAACTCCCGCATAGAGTCAGGATACGTTGGACTGAAGGATgtaagtacactcttcaaactcactaatccctacttcagactgactgattcgcatttttagcatttacttttgaactttgattcctgaaatcttagaaaat-------Mapped 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|7924044|gb|AW830052.1|AW830052EST: CTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGAT GTTAATAGTGGAGTCAAAGACAACATGATGCANAGCTTCTTTCTTGCGGAG
genomic: CTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGATgtaagcaaac ... catttctcagGTTAATAGTGGAGTCAAAGACAACATGATGCAAAGCTTCTTTCTTGCGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTAACTGGCAACAAAACGTACCAAGAATGGGGTTGGAATATATTTCAAGCTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGATgtaagcaaacctcaatttcacatctaataatgtgtttttgtttacattattattgtttctgtgtaaagtacatcctatcaaaagttagatcatttgttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG