Sequence
atgc intronic sequence ATGC exonic sequencegtatccgaacgaacttggtcctcttagctgtttcataggtaataatggtggaatcagcttatgcaaatcctaatttgatttgttttgtgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG
Basic information
species | Glycine max |
transcript | GLYMA11G02410.3 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
----gtatccgaac--gaacttggtcctcttagctgtttcataggtaataatggtggaatcagcttatgcaaatcctaatttgatttgttttgtgc-agATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG
| ||| || | || | | | | |||| | | ||||| | | | || | | | | | ||| |||| || ||||||| ||| |||||||||| || ||||||||||| |||||||||||||
gtacgcatctgagcccaaaatcaatgtgtcccgtcggttca--attcgt--tggtgaatactggcgctg-atgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
upper sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os04g35090.1 (Oryza sativa), 3'ss of exon 1
------------gtatccgaacgaacttggtcctcttagctgtttcataggta-ataatggtgga-atcagcttatgcaaatcct--------aatttgatttgtt--ttgt-gcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG
|| ||| | | || | || || || | || || | | |||| |||| ||| |||| |||| ||||||||| || |||||||||| || ||||||||||| |||||||||||||
gtaaacgcgcgaagctctgaatccatcctctgttcctcgcggtctcgcgtgcgtgccgtgctgcttgctggttgatgctaatctcctcactcgcgtttcgcctgtttgttgttgcagATCATCCCGAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCCAAG
upper sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 1
lower sequence: AC209215.4_FGT006 (Zea mays), 3'ss of exon 1
------------gtatccgaacgaacttggtcctcttagctgtttcataggtaata-atggtggaatcagcttatgcaaatcctaatttgatttgttttgtgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG
| | | | ||| |||| | || | ||| | | ||| || ||| || ||||| | |||||||||| ||| |||||||||| || ||||||||||| ||||||||| | |
ctcgaccgccgctcaccatggtaaggattacgctcgaggctgctccacgattttcgtatgttcccttttgctggtgttaatactgt----atttgctac-tgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGG
upper sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G050925_T01 (Zea mays), 3'ss of exon 1
gtatccga--acgaacttggtcctcttagctgtt--tcataggtaataatggtggaatcagcttatgcaaat-cctaatttgatttgttttg--tgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG
||| ||| ||| | || | | |||| | || | || | | || || ||| | | || ||| || ||||||||| ||| |||||||||| || ||||||||||| ||||||||| | |
gtaagcgagtacgcgcgaggctcaatacgctgctgctcctcggctttcgcctgttctgctgccggtgttaatatcgcacctgtttttcttcaaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGG
upper sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G043737_T02 (Zea mays), 3'ss of exon 1
gtatccgaacgaacttggtcctcttagctgtttcataggtaataatggtggaatcagcttatgcaaatcctaat-ttgatttgttttgtgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG---------------------------------------------------
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--------gtaaggattacgctcgaggctgctccacgattttcgtctgt-----ccccttttgccagtgttaatactgtatttgctaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGGTATGTGGTTCTTGGTCCACTAGACTCGCAGTAGGGTAACCTGGGCTGATT
upper sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G043737_T01 (Zea mays), 3'ss of exon 1
gtatccgaacgaacttggtcctcttagctgtttcataggtaataatggtggaatcagcttatgcaaatcctaat-ttgatttgttttgtgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG
| | ||| |||| | || | || | ||| ||| | | |||| || || | ||||||||| ||| |||||||||| || ||||||||||| ||||||||| | |
--------gtaaggattacgctcgaggctgctccacgattttcgtctgt-----ccccttttgccagtgttaatactgtatttgctaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGMapped 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|58014465|gb|CX701207.1|CX701207EST: CAGCAGCTGAGCTTGTTTCCGTCGCCGCTTCACCCACCGTAGCAACCATG ATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG
genomic: CAGCAGCTGAGCTTGTTTCCGTCGCCGCTTCACCCACCGTAGCAACCATGgtatccgaac ... ttttgtgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtaataatggtggaatcagcttatgcaaatcctaatttgatttgttttgtgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG
tttgtttt CT-rich tract
taatttgatttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatccgaacgaacttggtcctcttagctgtttcataggtaataatggtggaatcagcttatgcaaatcctaatttgatttgttttgtgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC