Sequence
atgc intronic sequence ATGC exonic sequencegtcctactaatccttgtccaagtttttttccttaggccccattaattatttagtatcatgaaaatgctttgttgttagggagaatgaatatatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCAGTTGGAGAGTTCTACTGGTCGTGTAGCTACAAGAGATATGGTACAATTTGTCCCTATGAGAGAAGTACAAA
Basic information
species | Glycine max |
transcript | GLYMA03G40210.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 14
lower sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 14
gtcctactaatccttgtccaagtttt-tttccttaggccccattaattatttagtatcatgaaaatgctttgttgttagggagaatgaatatatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCAGTTGGAGAGTTCTACTGGTCGTGTAGCTACAAGAGATATGGTACAATTTGTCCCTATGAGAGAAGTACAAA
|| |||||||| ||| | | | || ||| | || |||| | || || ||| | || | ||| ||| |||| |||||||||||||| || | ||| ||||||||||||||||| |||||||| | || || || |||||||||||||||| ||| | || |
---------------gtacaagttttgttttgtcaagttaggttttatatctgtctctttgcaaatagtaaacatgcagtgact-tgaccttgtaaat------atttcagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA
upper sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv14s0030g00550.t01 (Vitis vinifera), 3'ss of exon 11
----------------------------------gtcctactaatccttgtccaagtttttttccttaggccccattaattatttagtatcatgaaaatgctttgttgttaggga--gaatgaatatatatacttgtggattg-cagGTGCTGGATGCTGATAATGGGCGTCAGTTGGAGAGTTCTACTGGTCGTGTAGCTACAAGAGATATGGTACAATTTGTCCCTATGAGAGAAGTACAAA
| | |||| || || || | | || ||| | ||| ||| | | | | | | ||||| | || ||| | | ||| ||| | || ||||||||||| || ||| ||| ||||||||||| || |||||||| || ||||||| ||||| ||||| || ||||| ||||| |
gtgtacccttgttttcatattttagcattcaatacttcagttaatttatgcttttgtggcatttca-gtacttaatgctttaatgggtactatgggtttcatgtctcaacaatgtttgaatgtgttctgattcttattgtttggcagATCCTTGATGCTGATAACGGTTGTCGGTTAGAGAGTTCTACAGGACGTGTAGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG
upper sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv14s0030g00570.t01 (Vitis vinifera), 3'ss of exon 15
----------------------------------gtcctactaatccttgtccaagtttttttccttaggccccattaattatttagtatcatgaaaatgctttgttgttaggga--gaatgaatatatatacttgtggattg-cagGTGCTGGATGCTGATAATGGGCGTCAGTTGGAGAGTTCTACTGGTCGTGTAGCTACAAGAGATATGGTACAATTTGTCCCTATGAGAGAAGTACAAA
| | |||| || || || | | || ||| | ||| ||| | | | | | | ||||| | || ||| | ||| ||| | || ||||||||||| || ||| ||| ||||||||||| || |||||||| || ||||||| ||||| ||||| || ||||| ||||| |
gtgtacccttgttttcataatttagcattcaatacttcagttaatttatgcttttgtggcatttca-gtacttaatgctttaatgggtactatgggtttcatgtctcaacaatgtttgaatgtgttctgattcttattttttggcagATCCTTGATGCTGATAACGGTTGTCGGTTAGAGAGTTCTACAGGACGTGTAGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG
upper sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv12s0121g00080.t01 (Vitis vinifera), 3'ss of exon 14
----------------------------------gtcctactaatccttgtccaagtttttttccttaggccccattaattatttagtatcatgaaaatgctttgttgttagggaga-atgaatatatatacttgtggattg-cagGTGCTGGATGCTGATAATGGGCGTCAGTTGGAGAGTTCTACTGGTCGTGTAGCTACAAGAGATATGGTACAATTTGTCCCTATGAGAGAAGTACAAA
| | | |||| || | || | | || ||| | ||| ||| | | | | | | | ||| | || ||| | | ||| ||| | || ||||||||||| || ||| ||| ||||||||||| || |||||||| || ||||||| ||||| ||||| || ||||| ||||| |
gtgtacccttgttttcataatttagcattcaatacttcaattaatttatgcttta-ttggcatttcagtacttaatgctttaatgggtacaatgggcttcatgtctcaacaatgttatatgtgttctgattcttattgtttggcagATCCTTGATGCTGATAACGGTTGTCGGTTAGAGAGTTCTACAGGACGTGTAGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTGMapped 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|192315060|gb|FK010430.1|FK010430EST: TGTCGATTCTTATAGTTGGAGTGGGAAGTGCTGATTTCACGAGCATGGAG GTGCTGGATGCTGATAATGGGCGTCAGTTGGAGAGTTCTACTGGTCGTGTA
genomic: TGTCGATTCTTATAGTTGGAGTGGGAAGTGCTGATTTCACGAGCATGGAGgtcctactaa ... tggattgcagGTGCTGGATGCTGATAATGGGCGTCAGTTGGAGAGTTCTACTGGTCGTGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatgaaaatgctttgttgttagggagaatgaatatatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCAGTTGGAGAGTTCTACTGGTCGTGTAGCTACAAGAGATATGGTACAATTTGTCCCTATGAGAGAAGTACAAA
aatgaatatatatact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcctactaatccttgtccaagtttttttccttaggccccattaattatttagtatcatgaaaatgctttgttgttagggagaatgaatatatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCAGTTGGAGAGTTCTACTGGTCGTGTAGCTACAAGAGATATGGTACAATTTGTCCCTATGAGAGAAGTACAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT