Sequence
atgc intronic sequence ATGC exonic sequencegtaagccctgtttttagttgatttatttaaggttatcatttatcaaggtaacgatgttctgcttgattctgtttagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCT
Basic information
species | Glycine max |
transcript | GLYMA05G09360.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G09360.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g58130.1 (Oryza sativa), 3'ss of exon 7
-----gtaagccctgtttttagttgatttatttaaggttatcatttatcaaggt-----aacgatgttctgct-tgattctgtttagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCT
|| | || | | ||| || | || || || | || | ||| || || | | ||| ||||||||||||||||||| |||||||| ||||||| || |||||||| ||||||||| |||| ||||| ||||| || || ||||||||||||||||| |
gtatggtcattactttctcatgttacagcatggcaacaaatttcttctccatgtttcctagagataaacttctcttaatctaagcagGTTTTCTCTTGGGAACCAATAAGATGTCATGATACCGTTGATGTGGGATGGTCTAGACTGTCTGATCTAAATGTCCACGAGGGAAAACTTCTTGGTTGTT
upper sequence: GLYMA05G09360.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G160702_T01 (Zea mays), 3'ss of exon 7
gtaagccctgtttttagttgatttatttaaggttatcatttatcaaggtaacgatgttctgcttga-----------------ttctgtt--------tagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCT
| ||| || | || |||||||||||||||| || |||||||||||||||| ||||| ||||| ||||||||| | | ||| | ||||| ||||| ||||||||||||||||| |
-nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngactgaactagagattcgtaaacttttcttaaattaagcagGTTTTCTCTTGGGAGCCAATAAGATGCCATGATACTGTGGACGTGGGATGGTCTAGACTTGCCGATTTGAATGTCCATGAGGGAAAACTTCTTGGTTGTT
upper sequence: GLYMA05G09360.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 7
---gtaa-gccctgtttttagttgatttatttaaggttatcatttat----caagg----taacgatgttctgct-tgattctgtttagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCT
|| | || | | |||| | ||| || || | | | ||| ||| || | | | | || |||||||||| ||||| || |||||||||||||||| || |||||||| ||||||||| | | ||| | ||||| || || ||||||||||||||||| |
gtagtgctattattttctcaagtgatcatgtcaagcttgcttcttgtaccctatgacttctaaagatatttttttctcaaactaagcagGTTTTCTCCTGGGAGCCAATAAGATGCCATGATACTGTCGATGTGGGATGGTCTAGACTTGCTGATTTGAATGTCCACGAGGGAAAACTTCTTGGTTGTT
upper sequence: GLYMA05G09360.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G23430.2 (Arabidopsis thaliana), 3'ss of exon 8
-----------------------------------------------------------------------------gtaagccctgttttta-gttgatttattt------aaggttatcatt--tatcaaggtaacgatgttct----gcttgattctgtt-------tagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCT
| | | ||| ||| ||| | | |||| || | |||| || | || || | || || |||| ||| ||||||| ||||| || || ||||| |||||| |||||||| || ||||| |||||||||||| | |||||||| || ||||| |||||||||||||
gtaaattcttctatactttgatatgcagtatgtagattcttaaattagatatatgttaattgaacaactcatcttttgaaggattcgttcttatgtttactcatttgctttcaaaatacacattcctactcttcttacctcactcctttggtttaatcctgtgcaaatcgtagATTTTCTCATGGGAGCCAATTAGATGTCATGATGGAGTGGATGTTGGATGGTCAAGATTGTCAGATATGAATGTTCACGAGGGAAAGCTTCTTGGTTGCT
upper sequence: GLYMA05G09360.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 7
-------------------------gtaagccctgtttttagttgatttatttaaggttatcatttatcaaggta-acgatgttctgcttgattctgtttagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCT
|||| || | | | | || | | | || | || | || || ||| || | |||||||| || |||||||| ||||||||||||||| ||||||||||| ||||||||||| ||||||||||| ||||||| ||||| || || || ||||
gtacgcccttttgtgttttattatattaagaccctactctggattatatgaagacattccatgttcactaatttttactcaatttcaaacgatactttatagGTTTTTTCATGGGAACCAATAAGATGCCATGATGCTGTGGATGTGGGGTGGTCTAGATTATCAGATCTTAACATTCATGAGGGAAAGCTCCTGGGCTGCT
upper sequence: GLYMA05G09360.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S101_210V6.1 (Physcomitrella patens), 3'ss of exon 7
---------------gtaagccctgttt---ttagttgatttatttaaggttatcatttatcaaggtaac---gatgttctgctt---gattctgtttagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCT
| | | || || | || | | | | || |||| || | | | || || | | ||||||||||||||||||| | ||||| || |||||||||||||| |||||| | | | ||||| | | || ||||||||| | ||||| || |
agttcgggagcacctggagatcttgcggaagttgcggggttcttcttgtagtggctgttgtcaaagttccctgaacatatgaatttgagacttcttgcagGTTTTCTCTTGGGAACCGCTGAGATGTCACGATATGGTGGATGTTGGTTGGCACAAGCTTGCGGATCTCTCTATACACGAAGGAAAATTGCTTGGATGTTMapped 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|207836844|gb|GD807961.1|GD807961EST: TTAGTCCTGATGGGAGGACCCTGCTTTGTGGTTTACATGAGAGTTTGAAG GTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGG
genomic: TTAGTCCTGATGGGAGGACCCTGCTTTGTGGTTTACATGAGAGTTTGAAGgtaagccctg ... ttctgtttagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatttaaggttatcatttatcaaggtaacgatgttctgcttgattctgtttagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCT
ttctgttt CT-rich tract
ttatcatttatcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagccctgtttttagttgatttatttaaggttatcatttatcaaggtaacgatgttctgcttgattctgtttagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA