Sequence
atgc intronic sequence ATGC exonic sequence...tattattattattattattattttttaaacttaagtgcttcaatttgtgtaatgctttgtatagcatttgtaaactcttgatatatgcttctttttccagGTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAAAGTGGATCTGATGGGATTTCTCAGCAGGACTTACAAACAAATAGCAACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0100g00500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G32250.1 (Glycine max), 3'ss of exon 5
-tattattattattattattattttttaaacttaagtgcttcaatttgtgtaatgctttgtatagcatttgtaaactc-ttgatat-atgcttctttttccagGTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAAAGTGGATCTGATGGGATTTCTCAGCAGGACTTACAAACAAATAGCAACA
|| | | | | | || | |||| | | || | ||| | | ||||| || || || | || || | || ||||| || || || || ||||| || || |||||||| || ||||||||||||||||| |||||||| |||||||||| |||||||||||||| |||||||
aaggcatgaaaaaatgcacacctctccgaagtaaagttgattggtatg-gcaatatagaggttg--atttggaagctaattcagatgatttacaatgtttcagGTCAACCAATTAGTTCAGGTAGCTCAAAAATGCCAGAGTACAATTGCTGAAAGTGGGGCTGATGGGGTTTCTCAGCAAGACTTACAAACAAACAGCAACA
upper sequence: Vv16s0100g00500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G32260.1 (Glycine max), 3'ss of exon 7
tattattattattattattattt-tttaaacttaagtgcttcaatttgtgtaatgctttgtatagcatttgtaaactcttgatatatgcttctt---tttccagGTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAAAGTGGATCTGATGGGATTTCTCAGCAGGACTTACAAACAAATAGCAACA
| || || | ||| |||| | ||| | | | || | ||| || ||| ||| || | || ||| |||| ||| ||||| || ||||| || ||||| || | ||||| ||||| ||||||||||||||||| ||||||||| ||||||| || ||| | |||||||| |||||||
tgatagagatagtgcaattccaaatttatatttacttaatcc--ttgtagcaatactagagatattgttttggaagc--taattcatgattctcacatttgcagGTCAACCAGTTAGTTCAGGTAGCTAAAAAATGTCAAAGTACAATTGCTGAAAGTGGTTCTGATGGGGTTTCTCAACAAGACATCCAAACAAACAGCAACA
upper sequence: Vv16s0100g00500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G26970.1 (Glycine max), 3'ss of exon 5
-tattattattattattattattt-tttaaacttaagtgcttcaatttgtgtaatgctttgtatagcatttgtaaactcttgatatatgcttctttttccagGTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAAAGTGGATCTGATGGGATTTCTCAGCAGGACTTACAAACAAATAGCAACA
||| | | ||| |||| | ||| | ||| ||| | || ||| | || | | | ||| || | |||| ||||| || ||||| || ||||| || | ||||| ||||| ||||||||||||||||| ||||||||| ||||||| || ||| | |||||||| ||||||
tcatttcagatggtgcaattccaaatttatatttacttaattcttattgcattatagag-atattgttttggaagctaaatcata-attcacacttttgcagGTCAACCAGTTAGTTCAGGTAGCTAAAAAATGTCAAAGTACAATTGCTGAAAGTGGGTCTGATGGGGTTTCTCAACAAGACATTCAAACAAACGGCAACA
upper sequence: Vv16s0100g00500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G26960.1 (Glycine max), 3'ss of exon 7
tattattattattattattattttttaaacttaagtgcttcaatttgtgtaatgcttt-gtatagcatttgtaaactc-ttgatat-atgcttctttttccagGTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAAAGTGGATCTGATGGGATTTCTCAGCAGGACTTACAAACAAATAGCAACA
| || | | | | | | | | || | | || | | || | ||| |||| | ||||| || || || |||| || | ||| ||||| || || || | ||||| || || ||||| || || ||||||||||||||||| | ||| || |||||||||| || || |||||||| |||||||
aagcatgaaaaatgct-tacctctctgaagtaaggttgattgttatg-gcaatatagaagtattg-atttggaagctaattcatatgattcacaaattttcagGTCAACCAATTAATTCAGGTAGCTCAAAAATGTCAGAGTACAATTGCTGAAAGTGGGGCGGATTGGGTTTCTCAGCAAGATTTGCAAACAAACAGCAACA
upper sequence: Vv16s0100g00500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G25520.1 (Arabidopsis thaliana), 3'ss of exon 6
----tattattattattattattattttttaaacttaagtgcttcaatttgtgtaatgctttgtatagcatttgtaaactcttgatatatgcttctttttccagGTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAAAGTGGATCTGATGGGATTTCTCAGCAGGACTTACAAACAAATAGCAACA
| | | | ||||| | || | | | | || | || || | | | | | |||| |||| || ||| | | | |||||||| || ||| | |||||||||||||||||||| ||||| || | || ||||| || || ||| ||||||||||||| ||||| ||||||| ||||
aatagagcacaaagtctgttattttacttcagaacagatgtttacagatgctgcaacggtgctaagaagtgtactaaaatctt-atttat---tggtcatgcagGTGAACCAATTGCTTCAGGTTGCACAGAAATGCCAGAGCACGATCTCAGAGAGTGGGTCAGAGGGGGTTTCTCAGCAGGATTTACAGTCAAATAGTAACA
upper sequence: Vv16s0100g00500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G25515.1 (Arabidopsis thaliana), 3'ss of exon 5
tattattattattattattattttttaaacttaagtgcttcaatttgtgtaatgctttgtatagcatttgtaaactcttgatatatgcttctttttccagGTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAAAGTGGATCTGATGGGATTTCTCAGCAGGACTTACAAACAAATAGCAACA
| | |||| | || ||| |||| || | | | | ||| || | || | | | ||| || || | |||||||| |||||| | |||||||| ||||||||||| ||||| ||| |||| ||||| || | || ||||||||||||| |||| |||| || ||||
tgtatgaattagagcaaatagtttgtaaatctacttcagaacagacatatgctgcaatggttttgggaagtgtattgaaaacttattattggttatgcagGTGAACCAGTTGCTTCAGGTTGCTCAGAAATGCCAGAGCACGATTTCTGAGAGTGGTTCACAGGGAGTTTCTCAGCAGGATATACAGTCAAACAGTAACAMapped 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|37187404|gb|CF606757.1|CF606757EST: GTGCCCAACACCATGAAGAACTTCTTCCTCGTAGGTTGGTAGCCCCACAG GTGAATCAGTTGGTCCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAA
genomic: GTGCCCAACACCATGAAGAACTTCTTCCTCGTAGGTTGGTAGCCCCACAGgtactagttt ... ctttttccagGTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAA
EST:
gi|161720327|gb|FC071180.1|FC071180EST: GTGCCCAACACCATGAAGAACTTCTTCCTCGTAGGTTGGTAGCCCCACAG GTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAA
genomic: GTGCCCAACACCATGAAGAACTTCTTCCTCGTAGGTTGGTAGCCCCACAGgtactagttt ... ctttttccagGTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgtaatgctttgtatagcatttgtaaactcttgatatatgcttctttttccagGTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAAAGTGGATCTGATGGGATTTCTCAGCAGGACTTACAAACAAATAGCAACA
tcttgat putative branch site (score: 4)
tatgcttctttttcc CT-rich tract
atttgtaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattattattattattattattttttaaacttaagtgcttcaatttgtgtaatgctttgtatagcatttgtaaactcttgatatatgcttctttttccagGTGAATCAGTTGGTGCAGGTTGCACAGAAATGCCAAAGCACAATTGCTGAAAGTGGATCTGATGGGATTTCTCAGCAGGACTTACAAACAAATAGCAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - -tgcttca
- - - - - - - - - - - - - - - - - - - - - - - - - - tgctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatttg