Sequence
atgc intronic sequence ATGC exonic sequencegtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaagATGTCAACCGCTGGCAAGATGGTGCGATAGTGGCTAACAATCCTACAATTTTTGCCATAAGAGAAGCACAACTTCTGTGGCCAGATACAAAAATTGACTG
Basic information
species | Glycine max |
transcript | GLYMA07G38890.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38890.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G451672_T01 (Zea mays), 3'ss of exon 5
---gtactgat-tactctgctgttgtttgcat------caat-taggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaagATGTCAACCGCTGGCAAGATGGTGCGATAGTGGCTAACAATCCTACAATTTTTGCCATAAGAGAAGCACAACTTCTGTGGCCAGATACAAAAATTGACTG
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gtaatatttgtacactcagctatggtttctattttgtgcaatgtagactgtcttgttttcttgaagaccttttgatgtcggatgttcctcagttgccatttttattattgt-taccattttttcagATGCCAATCGTTGGCAAGATGGAGCTATTGTAGCCAACAATCCTACGATCTTTGCCATTAGAGAAGCACAACTTTTGTGGCCAGATACACGAATAGATTG
upper sequence: GLYMA07G38890.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G426556_T01 (Zea mays), 3'ss of exon 9
-------------gtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaagATGTCAACCGCTGGCAAGATGGTGCGATAGTGGCTAACAATCCTACAATTTTTGCCATAAGAGAAGCACAACTTCTGTGGCCAGATACAAAAATTGACTG
| | | | | || || | || | | | || || | | || || | | | || | || ||| | | ||||| || | | | | ||||| || || ||||||||||| || || || || |||||||||||||| |||||||| ||||||||||||||| ||||||||||| || ||| || ||
gtaatatttgtaagctcagttatggcatctattttgtgtagtacagaatatgccttgttttcttgaaggcctcttgatatcaaatgctccttggttgt-tatgttttcttcttatcattt-tttccagATGCAAATCGTTGGCAAGATGGAGCTATTGTAGCCAACAATCCTACAATCTTTGCCATTAGAGAAGCACAACTTTTGTGGCCAGATGCACGAATAGATTG
upper sequence: GLYMA07G38890.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G61850.1 (Arabidopsis thaliana), 3'ss of exon 11
gtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaagATGTCAACCGCTGGCAAGATGGTGCGATAGTGGCTAACAATCCTACAATTTTTGCCATAAGAGAAGCACAACTTCTGTGGCCAGATACAAAAATTGACTG
|| | | | || || | | | | | || | | | || | || | || ||| | | || | ||| ||||| | ||||||||||||||||| |||||||| |||||||||||||| |||||||| ||||||||||||||||| ||||| || ||||||||||| ||
--------------------gtctaccttctctattctccactcttatccatgactctttgttgtaagcttttacgctgatattatcttgtttcctttctaaatcat----taagACTCATATCGCTGGCAAGATGGTGCAATAGTGGCAAACAATCCTACAATCTTTGCCATCAGAGAAGCACAACTTCTATGGCCTGACACAAAAATTGATTG
upper sequence: GLYMA07G38890.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G61850.2 (Arabidopsis thaliana), 3'ss of exon 11
gtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaagATGTCAACCGCTGGCAAGATGGTGCGATAGTGGCTAACAATCCTACAATTTTTGCCATAAGAGAAGCACAACTTCTGTGGCCAGATACAAAAATTGACTG
| || | | | || || | | | | | || | | | || | || | || ||| | | || | ||| ||||| | ||||||||||||||||| |||||||| |||||||||||||| |||||||| ||||||||||||||||| ||||| || ||||||||||| ||
--------------gtacaagtctaccttctctattctccactcttatccatgactctttgttgtaagcttttacgctgatattatcttgtttcctttctaaatcat----taagACTCATATCGCTGGCAAGATGGTGCAATAGTGGCAAACAATCCTACAATCTTTGCCATCAGAGAAGCACAACTTCTATGGCCTGACACAAAAATTGATTG
upper sequence: GLYMA07G38890.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv10s0116g00830.t01 (Vitis vinifera), 3'ss of exon 11
--------------------------------------gtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaaca-tgccttaagATGTCAACCGCTGGCAAGATGGTGCGATAGTGGCTAACAATCCTACAATTTTTGCCATAAGAGAAGCACAACTTCTGTGGCCAGATACAAAAATTGACTG
| || || | ||| | ||| | | | ||| |||| | | || ||| | | | || | || | | ||| |||| |||| || | | | ||| | || ||||||||||||||||| ||||| ||||| |||||||| ||||| |||| || ||||||||||| | ||||| || |||| |||||||
gtactgtctttctgtgcttgcttgaaatgactcatcacttggcatttgcttttctggt-tttatgttgaatgccttgtgctttacctctttttggttctaagagtttgttttgtgtttcttttttttctttttttcctaattcaatttcatcagACATGAATCGCTGGCAAGATGGTGCAATAGTAGCTAATAATCCTACTGTTTTTTCCATGAGGGAAGCACAACTCTTATGGCCTGACACAAGAATTGACACMapped 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|13311431|gb|BG405082.1|BG405082EST: AGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCGGATG ATGTCAACCGCTGGCAAGATGGTGCAATAGTGGCTAACAATCCTACAATTT
genomic: AGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCAGATGgtactgatta ... atgccttaagATGTCAACCGCTGGCAAGATGGTGCGATAGTGGCTAACAATCCTACAATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaagATGTCAACCGCTGGCAAGATGGTGCGATAGTGGCTAACAATCCTACAATTTTTGCCATAAGAGAAGCACAACTTCTGTGGCCAGATACAAAAATTGACTG
tattgttatttatgtg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaagATGTCAACCGCTGGCAAGATGGTGCGATAGTGGCTAACAATCCTACAATTTTTGCCATAAGAGAAGCACAACTTCTGTGGCCAGATACAAAAATTGACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC