Sequence
atgc intronic sequence ATGC exonic sequenceGACATCATGGGCAATTAGTACACGTTTTGTTGGTGGTATCATCATGACACATGGAGATGACGCAGGCCTAATGCTTCCCCCAAAGATTGCACCAATACAGgtacatttggatgctattgatgtcttaaccttgatgtgtagacaccattagttaaattttgctgttgaaagttggaatactttgctccttggtcaggcaa...
Basic information
species | Glycine max |
transcript | GLYMA16G29890.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G29890.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os07g07060.1 (Oryza sativa), 5'ss of exon 5
GACATCATGGGCAATTAGTACACGTTTTGTTGGTGGTATCATCATGACACATGGAGATGACGCAGGCCTAATGCTTCCCCCAAAGATTGCACCAATACAGgtacatttggatgctattgatgtcttaaccttgatgtgtagacaccattagttaaattttgctgttgaaagttggaatactttgctccttggtcaggcaa---
||| || ||||| ||||| || || ||||||||||| ||||||||||| ||||| ||||| || ||| |||||||||| ||||| |||||||| || ||||| ||| || | ||| || | | | | | | ||| | | | |||| ||| | | | | || | | ||
GACTTCTTGGGCTATTAGCACTCGGTTTGTTGGTGGGATCATCATGACCCATGGTGATGATGCTGGCTTAATGCTTCCGCCAAATATTGCACCCATCCAGgtctttttccat-cgattaat-tatatatgtgatttcttgtacataaaaactggggcccctctgtc-aaactatgtttgccctgatgccctctcctttgtatt
upper sequence: GLYMA16G29890.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G107089_T01 (Zea mays), 5'ss of exon 7
GACATCATGGGCAATTAGTACACGTTTTGTTGGTGGTATCATCATGACACATGGAGATGACGCAGGCCTAATGCTTCCCCCAAAGATTGCACCAATACAGgtacatttggatgctattgatgtcttaaccttg-atgtgtag------acaccattagttaaattttgctgttgaaagttggaatact----ttgctccttggtcaggcaa----------------------------------------------------------------------------------------
||| || ||||| |||||||| || ||||||||||| || |||||||| ||||| ||||| || || ||||||||||| |||| ||||||||| || ||||| | | | | | ||| | ||| || | || | || | | | || | || | | || | ||||| | | ||
GACCTCTTGGGCTATTAGTACTCGGTTTGTTGGTGGGATTATCATGACCCATGGCGATGATGCCGGTCTAATGCTTCCTCCAAGGATTGCACCCATTCAGgtctcctctccttcc-tcatttgcttgcctttgtattcacaacattctacctgactaatctagtcttccctcctttgtttcgtgtgctactatcaatcctttacaatgtaataaatggctaactaaaatgtacattgttctgttttcaaatccatacccatgatggggctatctctaagaatgttcctatttaattcag
upper sequence: GLYMA16G29890.1 (Glycine max), 5'ss of exon 7
lower sequence: AT5G52520.1 (Arabidopsis thaliana), 5'ss of exon 7
GACATCATGGGCAATTAGTACACGTTTTGTTGGTGGTATCATCATGACACATGGAGATGACGCAGGCCTAATGCTTCCCCCAAAGATTGCACCAATACAGgtacatttggatgctattgatgtcttaaccttgatgtgtagaca---ccattagttaaat----tttgctgttgaaagttggaatactttgctcct-tggtcaggcaa---------------------------------------------
||||||||||||| | |||||||||||||||||||| || |||||||| || ||||||||| | || || |||||||| || ||||| || ||||||||||| || | | | | |||| | || || || || ||| |||| |||| | | | | || | | | | | | ||| |
GACATCATGGGCAGTCAGTACACGTTTTGTTGGTGGCATTATCATGACTCACGGAGATGACACTGGTCTCATGCTTCCTCCCAAGATAGCTCCAATACAGgtttatctttcttaagcagttttctttgctttaatctgaagttcgatttgctagctaaagagaatttgttatggggaaacgggagctgtagtgattatctttaggaagtgatgagagacttgagattgaatcctctcttttctttatttgaag
upper sequence: GLYMA16G29890.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv16s0050g00960.t01 (Vitis vinifera), 5'ss of exon 7
GACATCATGGGCAATTAGTACACGTTTTGTTGGTGGTATCATCATGACACATGGAGATGACGCAGGCCTAATGCTTCCCCCAAAGATTGCACCAATACAGgtac-atttgg-atgctattgatgtc-ttaaccttgatgtgtagacacc---attag--------ttaaattttgctgtt--------gaaagttggaatactttgctccttggtcaggcaa----------------------------------------------------------------------
||||||||||||| | || || |||||| ||||||||||||||||||| ||||||||||| || || | |||||||||||||| ||||| |||||||||||| | || || || ||| ||| | | || ||| ||||| || ||||||| | | | ||||| | ||| ||| | |
GACATCATGGGCAGTCAGCACCCGTTTTATTGGTGGTATCATCATGACCCATGGAGATGATGCTGGTTTGATGCTTCCCCCAAAAATTGCTCCAATACAGgtattacttactatctgatcagtgttgttagatccagtttatatacattccaattagagactgctccaagttttgcttcttgccatatggtacttggagattataactcattgttttagttctgcatttttttgttcttaatgcttgttgatttgacaattttatattttaacacctattgcatttttccagMapped 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|17401881|gb|BM178663.1|BM178663EST: ATGGAGATGACGCAGGCCTAATGCTTCCCCCAAAGATTGCACCAATACAG GTGGTAATTGTACCCATTTGGAAGAAGGATGATGAAAAAGAGGCAGTTCTA
genomic: ATGGAGATGACGCAGGCCTAATGCTTCCCCCAAAGATTGCACCAATACAGgtacatttgg ... gcctggttagGTGGTAATTGTACCCATTTGGAAGAAGGATGATGAAAAAGAGGCAGTTCTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GACATCATGGGCAATTAGTACACGTTTTGTTGGTGGTATCATCATGACACATGGAGATGACGCAGGCCTAATGCTTCCCCCAAAGATTGCACCAATACAGgtacatttggatgctattgatgtcttaaccttgatgtgtagacaccattagttaaattttgctgttgaaagttggaatactttgctccttggtcaggcaa
- - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG