Sequence
atgc intronic sequence ATGC exonic sequenceTTTGCTATCATGGCTGGGTCGGCACCCGAAGGATCACAATTCGATGCTCGTCAATATGATGCTAAGATGAATGAGTTgtaggtttccccttcccttagatggatgcttaatagagatgccatggcttgagatatgcctttatattataataatatgtattagtgataccatcttattatttcatgtgtaatgcctacctgtgaactgtgatacatccatgcctagaagaattatatgctcattcttggttttatgttttcatgggaccag
Basic information
species | Glycine max |
transcript | GLYMA06G05580.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G05580.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv04s0008g01000.t01 (Vitis vinifera), 5'ss of exon 1
TTTGCTATCATGGCTGGGTCGGCACCCGAAGGATCACAATTCGATGCTCGTCAATATGATGCTAAGATGAATGAGTTgtaggtttccccttc----ccttagatggatgcttaatagagatgccatggcttgagatatgcctttatattataataatatgtattagtgataccatcttattatttcatgtgtaatgcctacctgtgaactgtgatacatccatgcctagaagaattatatgctcattcttggttttatgttttcatgggaccag
|||||||||| | |||||| |||||||||||||| |||||||||||||||||| || |||||||||||||| |||| ||| ||||| |||| || | | ||| | || | | | | | | | || ||||| ||| ||| || | | | || ||| |||| || |||| || | || ||||| ||| | ||| ||| | || |||||| |||
-----AGTCATGGCTGGCTTGGCACCGGAAGGATCACAATTTGATGCTCGTCAATATGATAGCAAAATGAATGAGTTgtaagttttgttttctatcccttaatcagatggttgttgctgttgcattagcagtaattttccttgtttctt-------tatgttttattgacacaaga--acttttgtggatgtgatgctaac------gctgtaatg------ttattaattgaatttcatg-ttatttttgaataattg-----atgggagcag
upper sequence: GLYMA06G05580.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S383_1V6.1 (Physcomitrella patens), 5'ss of exon 2
---TTTGCTATCATGGCTGGGTCGGCACCCGAAGGATCACAATTCGATGCTCGTCAATATGATGCTAAGATGAATGAGTTgtaggtttccccttcccttagatggatgcttaatagagatgccatggcttgagatatgcctttatattataataatatgtattagtgataccatcttattatttcatgtgtaatgcctacctgtgaactgtgatacatccatgcctagaagaattatatgctcattcttggttttatgttttcatgggaccag
|| |||||||| || ||||||||||| || || ||||||||||| |||||||| || |||||| | | |||| | | | || | | | || |||| | || || ||| ||||| || | | || | | | || | | | |
CAGCGAAGTAGTATGGCTGGATCTGCACCCGAAGGGTCTCAGTTCGATGCTCGCCAATATGACGCCAAGATGGAGAATATgtaagagcgtttctatccatcatcgctatt--atcatcatgcactttctaaag-----cctccatatttggatccaacattttgatatgtcagtgctaccactgctt--------------------------------------------------------------------------------------
upper sequence: GLYMA06G05580.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S383_1V6.3 (Physcomitrella patens), 5'ss of exon 2
TTTGCTATCATGGCTGGGTCGGCACCCGAAGGATCACAATTCGATGCTCGTCAATATGATGCTAAGATGAATGAGTTgtaggtttccccttcccttagatggatgcttaatagagatgccatggcttgagatatgcctttatattataataatatgtattagtgataccatcttattatttcatgtgtaatgcctacctgtgaactgtgatacatccatgcctagaagaattatatgctcattcttggttttatgttttcatgggaccag
|| |||||||| || ||||||||||| || || ||||||||||| |||||||| || |||||| | | |||| | | | || | | | || |||| | || || ||| ||||| || | | || | | | || | | | |
CGAAGTAGTATGGCTGGATCTGCACCCGAAGGGTCTCAGTTCGATGCTCGCCAATATGACGCCAAGATGGAGAATATgtaagagcgtttctatccatcatcgctatt--atcatcatgcactttctaaag-----cctccatatttggatccaacattttgatatgtcagtgctaccactgctt--------------------------------------------------------------------------------------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|254324362|gb|GR833787.1|GR833787EST: GAAGGATCACAATTCGATGCTCGTCAATATGATGCTAAGATGAATGAGTT ACTTGGAACTGATGGGCAAGANNNNNNNACTTCTTATGACGAAGTTTGTGA
genomic: GAAGGATCACAATTCGATGCTCGTCAATATGATGCTAAGATGAATGAGTTgtaggtttcc ... atgggaccagACTTGGAACTGATGGGCAAGATTTTTTTACTTCTTATGACGAAGTTTGTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGCTATCATGGCTGGGTCGGCACCCGAAGGATCACAATTCGATGCTCGTCAATATGATGCTAAGATGAATGAGTTgtaggtttccccttcccttagatggatgcttaatagagatgccatggcttgagatatgcctttatattataataatatgtattagtgataccatcttattatttcatgtgtaatgcctacctgtgaactgtgatacatccatgcctagaagaattatatgctcattcttggttttatgttttcatgggaccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG