Sequence
atgc intronic sequence ATGC exonic sequencegtgattatcctgtaggttttgttcaacaatgttttttctattcaaatatcttttcttatatacctgctttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
Basic information
species | Glycine max |
transcript | GLYMA19G07140.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os12g19030.1 (Oryza sativa), 3'ss of exon 7
------------------------------gtgattatcctgtaggttttgttcaacaatgttttttctattcaaatatcttttcttatatacctgctttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
| | | | | |||| | || ||| || | || | | ||||| | ||| |||| ||||||| | || || || |||||||| |||||||||||||| ||||| ||||||||||| ||||| ||||| || || || || ||||| |||
ctaaaaggggaaaaacaacctaaaagcaagagaaggaccacaaggaccaaagaccacaaggcttattccatcagactaacct-------gtaccttcactgttgcagTGAATTTCCCTTGTCTATAATTTTGGTTGGAGTTGGAGATGGTCCATGGGATATGATGAAGGAATTTGACGACAACATACCTGCTAGGTCTTTTGACAAT
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g68060.1 (Oryza sativa), 3'ss of exon 6
----------------------------------------------------------------------------------------gtgattatcctgtaggttt---tgttcaacaatgttttttctattcaaatatct--tttcttatatacctgcttt-gtc-acagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
| ||||| | || ||| | | | || | | || | | || | | || | | | ||| ||| |||| |||| || | || || | | || || ||||| ||||| ||||||||||||||||| |||||||| ||||| || || | || | ||||| |||
gttcgtacttcataagttccttttttacattgttttgatatgctcataccgcctgtaactcccatgcattttgactcctgtttttgtggcgattactttatatgttcacatagtttgcgttgcctctgtcatggatgttgctgatgttttgctttctggttttcgtctgcagTGAATTGCCGTTGTCTATTGTGCTAGTAGGAGTTGGTGATGGCCCTTGGGACATGATGAAAGAGTTTGACGACAACATTCCTTCTCGTGCTTTTGACAAT
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G073049_T01 (Zea mays), 3'ss of exon 7
---------gtgattatcctgtaggttttgt---tcaacaatgttttttctattcaaatatcttt-----------tcttatatacctgctttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
||| | | | ||| ||||||| | | || | || | | | || | | | ||| | | || |||| || | || || || | ||||| |||||||||||||| ||||| ||||||||||| |||||||||||||| ||||| || ||||| |||
tccgagaacatgacccattttttcatactgtatttcaacaacactggtcgcgtttacattgcatcaaggcctcgaattttgtttgtttctttttttatagCCAATTCCCATTGTCTATAATTCTTGTTGGAGTTGGAGATGGTCCATGGGATATGATGAAGGAATTTGATGACAATATACCAGCTAGGTCTTTTGACAAT
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G477113_T02 (Zea mays), 3'ss of exon 5
------------------------------------------------------------------gtgattatcctgtaggttttgttcaacaatgttttttctattcaaatatcttttcttatatacctgc--------tttgtc-acagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
| || ||| ||| | || | || | | | | || | || | | | || |||||| |||| |||| ||| | || || | || || || ||||| ||||| || ||||||||||||||||| ||||||||||| || || || || | ||||| |||
gtatagatgtccttcattaccttgtttcaaaatactctcgctgaaatgacaattacttacagctacgacatcatcatgttt-cataatttttcgttgcctcctgtgtcagaaaagacttctgattgtttcagcttttgccttttgtctgcagTGAATTGCCTTTGTCCATTGTGTTAGTAGGAGTTGGTGATGGCCCCTGGGACATGATGAAGGAATTTGATGACAACATTCCTGCTCGAGCTTTTGACAAT
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G065893_T01 (Zea mays), 3'ss of exon 6
---------------------------------------------------------------------gtgattat--cctgtaggttttgttcaacaatgttttttctattcaaatatcttttcttatatacctgc--tttgtc-acagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
| || || || ||| ||| ||| | | | | | || || ||| |||||| |||| |||| ||| | || || | || || || ||||| ||||| || ||||||||||||||||| ||||||||||| || || || || | ||||| |||
gtataaatgtccttcattaccttgtttcaaaatactcttgctgaaatgacaattacttacagctacgacatcatcatgtttcataattttcgttgcctcctgtgtcagaaaaagacttctgattgtttcagcttttgccttttgtctgcagTGAATTGCCTTTGTCCATTGTGTTAGTAGGAGTTGGTGATGGCCCCTGGGACATGATGAAGGAATTTGATGACAACATTCCTGCTCGAGCTTTTGACAAT
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G077809_T02 (Zea mays), 3'ss of exon 6
----------------------------------------------------------gtgattatc-ctgtag----gttttgttcaacaatgtt-----ttttctattcaaatatcttttcttatat--acctgc---tttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
| ||| || | | | |||| | ||| || | |||| | | | | || |||| | | || ||| |||| |||| ||| | || || | || || || ||||| ||||| || ||||||||||||||||| ||||||||||| || || | || | ||||| |||
gtaacacccacattccagataaatgtccttcaggtgttactgaatggtgtcttgacatttacttactgctatggtatcatcatgtttcataattttgctggcctcctatgccagaaacacttattatttcagcttgtcttttttctgcagTGAATTGCCTTTGTCCATTGTGTTAGTAGGAGTTGGTGATGGCCCCTGGGACATGATGAAGGAATTTGATGACAACATTCCTTCTCGAGCTTTTGACAAT
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv14s0066g00290.t01 (Vitis vinifera), 3'ss of exon 6
gtgatta---tcctgtaggttttgttcaacaatgttttttctattcaaatatct-tttcttatatacctgctttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
|||| | | | | ||| | | ||| || || | || | ||||| ||| || ||| | |||| || || || || ||||| || || ||||| ||||||||||| || ||||||||||||| ||| |||||||| || ||||| || |||| ||||||||||
gtgaatgaagttaatttgctttcttgtggtatgatttatttccctcgaccatttctttctcttatgtttgttttattacagCAAGTTGCCCCTGTCAATTATTTTAGTTGGGGTTGGAGATGGGCCCTGGGACATGATGAGGGAATTTGATGATAACATCCCTGCTCGGGCCTTTGATAAT
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ35268 (Selaginella moellendorffii), 3'ss of exon 5
gtgattatcctgtaggttttgttcaacaatgttttttctattcaaatatcttttcttatatacctgctttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
||| | || ||| | | ||||| || | | || ||| | || | | ||| || | | | || || ||| | | ||||| ||||| |||||||||||||| |||||||| |||||||| ||||| ||||| || | || |||||
-----------gtacgcttcgttttctactatttttcctgtgcctatgcctt-----------ccactcttttgcagCAACTATGCGCTGTCGATCGTTCTTGTTGGAGTTGGCGATGGTCCTTGGGATATGATGAAAGAGTTTGACGACAACATCCCCAGACGAGCATTCGATAAC
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ24202 (Selaginella moellendorffii), 3'ss of exon 5
gtgattatcctgtaggttttgttcaacaatgttttttctattcaaatatcttttcttatatacctgctttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
||| | |||||| | | ||||| ||| | || ||| | || | | ||| || | | | || || ||| | | ||||| ||||| |||||||||||||| |||||||| |||||||| ||||| ||||| || | || |||||
-----------gtacgctttgttttctactatttttcctacgcctatgcctt-----------ccactcttttgcagCAACTATGCGCTGTCGATCGTTCTTGTTGGAGTTGGCGATGGTCCTTGGGATATGATGAAAGAGTTTGACGACAACATCCCCAGACGAGCATTCGATAAC
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ21520 (Selaginella moellendorffii), 3'ss of exon 6
gtgattatcctgtaggttttgttcaacaatgttttttctattcaaatatcttttcttatatacctgctttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
|| | | | | ||||| | | || || | | || | || ||| | | ||||| | |||||| |||| | || || | | ||||||||||||||||| || |||||||||||| ||||||| || || || || || | ||||| ||
gtcaatgcctt------cttgttaatgccttcttgttttccgcgaaaaactcaacttg-gtgcttgctt--gcgcagTAATCTTCCATTGTCTATAGTTCTTGTTGGTGTTGGAGATGGGCCATGGGACATGATGCGACAGTTTGACGATAACATTCCTCAGCGATTGTTTGACAAC
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ27121 (Selaginella moellendorffii), 3'ss of exon 6
gtgattatcctgtaggttttgttcaacaatgtttt-ttctattcaaatatcttttcttatatacctgctttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
|||| | || || | | || | || ||| | | ||||| | |||||| |||| | || || | | ||||||||||||||||| || |||||||||||| ||||||| || || || || || | ||||| ||
---------------------gtcaatgccttcttgttttccgcgaaaaactcaacttg-gtgcttgctt--gcgcagTAATCTTCCGTTGTCTATAGTTCTTGTTGGTGTTGGAGATGGGCCATGGGACATGATGCGACAGTTTGACGATAACATTCCTCAGCGATTGTTTGACAACMapped 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|10236797|gb|BE805685.1|BE805685EST: AGACTAAGTCCACAGGAGCAGAGCACTGTGGATGCCATTGTTGAGGCCAG TAAATGTCCTCTATCAATCATATTGGTTGGTGTTGGAGATGGTCCTCGCTA
genomic: AGACTAAGTCCACAGGAGCAGAGCACTGTGGATGCCATTGTTGAGGCCAGgtgattatcc ... tttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGA
EST:
gi|193427392|gb|FK394846.1|FK394846EST: CCATTGTTGAGGCCAG TAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGA
genomic: CCATTGTTGAGGCCAGgtgattatcc ... tttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaacaatgttttttctattcaaatatcttttcttatatacctgctttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
cctgcttt CT-rich tract
aatgttttttctattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgattatcctgtaggttttgttcaacaatgttttttctattcaaatatcttttcttatatacctgctttgtcacagTAAATTTCCTCTTTCAATCATATTGGTTGGTGTTGGAGATGGTCCTTGGGACATGATGAAGGAGTTTGATGACAATATCCCAGCCCGGGTCTTTGATAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG