Sequence
atgc intronic sequence ATGC exonic sequence...gctacaagtccttttccaaagggtctgcattttcaatgctcatacttttacagaatactaatttgatgaggggtgaattttttttgtttgtgaactgaagGTGGTTATGACATGGAAGAGAAAGCCGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACGCACATAAACTTCTCG
Basic information
species | Glycine max |
transcript | GLYMA14G10130.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os03g56050.1 (Oryza sativa), 3'ss of exon 3
-------gctacaagtccttttccaaagggtctgcattttcaatgctcatacttttacagaatactaatttgat-gaggggtgaattttttttgtttgtgaactgaagGTGGTTATGACATGGAAGAGAAAGCCGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACGCACATAAACTTCTCG
||| | | || | | || | | || | || |||| || | ||||||| | | | | | | |||| | ||||| ||||||||||| ||||| || || ||||| ||||||||||| || |||||||| ||||| ||||| |||||||| |||||| ||
gtgtatcttggtgagtaccagtacacaagtacttgggatgaattgat--tagtttttggaaacaaagatttgattgtgagattgcaatgtaacctttgcta------gGTGGGTATGACATGGAGGAGAAGGCTGCCAGGGCGTATGATCTTGCTGCGCTCAAGTACTGGGGCCCTTCCACGCACATCAACTTCCCG
upper sequence: GLYMA14G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os07g03250.1 (Oryza sativa), 3'ss of exon 2
---------gctacaagtccttttccaaagggtctgcattttcaatgc-tcatacttttacagaatactaatttg-atgaggggtgaattttttttgtttgtgaactga-agGTGGTTATGACATGGAAGAGAAAGCCGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACGCACATAAACTTCTCG
|||| |||| | | | ||| | || | | | || | | || ||| | | || ||| |||| ||| | |||||| ||||||||||| |||||||| || || || ||||| || ||||| |||||||||||||| ||||| || ||||| |||||| ||
gtaagtgttattacat-tcctcatgtggtaactttacatggtaaaaatgttctcgtggtaaaaagtaaaaataaataaaaaaagttcttttactttggttgggggtgattagGTGGGTATGACATGGAGGAGAAAGCGGCGAGAGCGTATGACCTGGCGGCGCTCAAGTATTGGGGCCCTTCCACACACATCAACTTCCCG
upper sequence: GLYMA14G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os03g12950.1 (Oryza sativa), 3'ss of exon 4
gctacaagtccttttccaaagggtctgcattttcaatgctcatacttttacagaatactaatttgatgaggggtga-attttttttgtttgtgaactgaagGTGGTTATGACATGGAAGAGAAAGCCGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACGCACATAAACTTCTCG
|| || | || |||| | | | | | | |||| | | || ||||| || ||| | |||||||||||||| ||||| ||||| || |||||||||||||| || || || || || ||||| | || ||||| ||||| ||| ||
----------------gtaactgttgccccttacaatttctttgttctcattgtacttatattttgtatctgttgctgacctttttcttcgtgttcgttagGTGGTTATGACACTGAAGATAAAGCTGCGAGGGCTTATGATCTGGCTGCGCTGAAATACTGGGGGCTATCTACGCATATAAATTTCCCG
upper sequence: GLYMA14G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 4
gctacaagtccttttccaaagggtctgcattttcaatgctcatacttttacagaatactaatttgatgaggggtgaattttttttgtttgtgaactgaagGTGGTTATGACATGGAAGAGAAAGCCGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACGCACATAAACTTCTCG
|| ||||||| |||| || || | || || | | || | | | |||| || | || | ||| || ||||| |||||||||||||| ||||| ||||| ||||| ||||| ||||| || ||||||||||| || || || |||||| ||
-gtaagcccccttttctttttggtcgaaatgaagaaaccatgtatgagtata---ttctgttcgtgtttatatttaattgattctacccatgtctttcagGGGGGTATGATATGGAAGAGAAAGCTGCAAGAGCTTACGATCTGGCGGCCCTCAAATACTGGGGACCTTCTACTCATATCAACTTCCCG
upper sequence: GLYMA14G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ26861 (Selaginella moellendorffii), 3'ss of exon 3
gctacaagtccttttccaaagggtctgcattttcaatgctcatacttttacagaatactaatttgatgaggggtgaattttttttgtttg---tgaac-tgaagGTGGTTATGACATGGAAGAGAAAGCCGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACGCACATAAACTTCTCG
| | | | || | | || || || | ||| | | | || | | | ||| ||| ||| | |||| | ||| |||||||||| ||||||||||| || | || |||||||| ||||| |||||||||||||||||| | || ||| ||||| |
aatgcgcagtttacctgggtgagtgtcactctttgttgttcgtgctt----gaagttttttttcgttcctcatttaatgtttcttgccgggaatgaatgcgcagGGGGTTATGACAAAGAAGAGAAAGCAGCGCGAGCGTATGATCTGGCGGCGCTCAAGTATTGGGGACCTACGACCACCATCAACTTTCCT
upper sequence: GLYMA14G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ21317 (Selaginella moellendorffii), 3'ss of exon 3
gctacaagtccttttccaaagggtctgcattttcaatgctcatacttttacagaatactaatttgatgaggggtgaattttttttgtttg---tgaac-tgaagGTGGTTATGACATGGAAGAGAAAGCCGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACGCACATAAACTTCTCG
| | | | || | | || || || | ||| | | | || | | | ||| ||| ||| | |||| | ||| |||||||||| |||||||||||| || | || |||||||| ||||| |||||||||||||||||| | || ||| ||||| |
aatgcgcagtttacctgggtgagtgtcactctttgttgttcgtgctt----gaagtgttttttcgttcctcatttaatgtttcttgccgggaatgaatgcgcagGGGGTTATGACAAGGAAGAGAAAGCAGCGCGAGCGTATGATCTGGCGGCGCTCAAGTATTGGGGACCTACGACCACCATCAACTTTCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttacagaatactaatttgatgaggggtgaattttttttgtttgtgaactgaagGTGGTTATGACATGGAAGAGAAAGCCGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACGCACATAAACTTCTCG
ttttttttgtttgt CT-rich tract
tgaattttttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctacaagtccttttccaaagggtctgcattttcaatgctcatacttttacagaatactaatttgatgaggggtgaattttttttgtttgtgaactgaagGTGGTTATGACATGGAAGAGAAAGCCGCAAGGGCTTATGATCTTGCGGCTCTCAAGTATTGGGGACCTTCAACGCACATAAACTTCTCG
- - caagtcc
- - - - - - - - - - - - -tgcattt
- - - - - - - - - - - - - - - - - aatgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgagggg