Sequence
atgc intronic sequence ATGC exonic sequencegttacaaaccctccttactagttagtggttacattcacatatggatatagtttaaaactgaattcaacatatttcttgcagATTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGGCCAATATGATCCAATGGAGGAAAGAATATGGTACAGATACAATTATGGAG
Basic information
species | Glycine max |
transcript | GLYMA06G03300.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G03300.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g04020.1 (Oryza sativa), 3'ss of exon 3
gt-tacaaaccctccttacta--gttagtggttacattcacatatggatatagtttaaaactgaattcaacatatttcttgcagATTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGGCCAATATGATCCAATGGAGGAAAGAATATGGTACAGATACAATTATGGAG
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gtatatataccctattacttaccatcatttttttaacccaactgcaaacat-gctgatgacttgactaat--tgatttgtgtagATTTCTAAAAGCAAGGAGATTTGACATTGAGAAAGCAAAGCAAATGTGGACTGACATGCTTAAATGGAGGAAGGAGTACGGTACAGATACAATTGTTGAG
upper sequence: GLYMA06G03300.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 3
--------------------gttacaaaccctccttactagttagtg-gtta-cattcacatatggatat----agtttaaaactgaattcaacatatttcttgc----agATTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGGCCAATATGATCCAATGGAGGAAAGAATATGGTACAGATACAATTATGGAG
| | ||| | | || || |||| |||| | | | || ||| | | || || | | || ||| | ||||| | ||||||||||| |||||||| || ||||||||||| |||||| ||||| | || ||| ||| || ||||| || ||||| ||| |||||
gtatatgtatccagtaaattatgatgcaccttttgtttagcttgatgtgttagttttcatttttccaaatcacaagtgcacagctcaagcctaactaaatctggtctttagATTTCTAAAAGCAAGGAAATTTGATATCGACAAAGCAAAGCAAATGTGGATGGATATGCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG
upper sequence: GLYMA06G03300.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G75370.1 (Arabidopsis thaliana), 3'ss of exon 2
----gttacaaaccctccttactagttagtggttacattcacatatggatatagtttaaaactgaattcaacatatttcttgc-agATTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGGCCAATATGATCCAATGGAGGAAAGAATATGGTACAGATACAATTATGGAG
| | || | | || | | | | | |||| || | | | || || || || |||||||||||||| ||||| |||||||||| |||| | ||| |||||| ||||||||| ||||||| ||||| | |||||| || || ||| | |||
gtgagactttatttctgtcgattcatttttcatgatgatgatg-atggtgatgatgatgattttgatgttctatgttctctgttagATTCTTGAAAGCTAGGAAATTTGATATTGGGAAAACCAAGTTAATGTGGAGTAATATGATCAAATGGAGAAAAGATTTTGGTACTGACACCATTTTCGAG
upper sequence: GLYMA06G03300.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0001g12950.t01 (Vitis vinifera), 3'ss of exon 2
gttacaaaccctccttactagttagtggttacattcacatatggatatagtttaaaactgaattcaacatatttcttgcagATTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGGCCAATATGATCCAATGGAGGAAAGAATATGGTACAGATACAATTATGGAG
|| | | | || || || || || | | | | || || | || | | | ||||||||| |||||||| |||||||||||||| || || || |||||||||||| || | ||||| || ||||||||| | | || || || || || |||||
gtcttacaatgctttgcctttttcctgattttggctacttctctacagagcttcattctcaggg-attgccatctttgcagATTTTTGAAAGCCAGGAAGTTTGATATGGAAAAGGCGAAGCACATGTGGACCGAAATGATTCACTGGAGGAAAAACTTCGGCACCGACACTATCTTGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttacattcacatatggatatagtttaaaactgaattcaacatatttcttgcagATTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGGCCAATATGATCCAATGGAGGAAAGAATATGGTACAGATACAATTATGGAG
tatttctt CT-rich tract
atatagtttaaaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttacaaaccctccttactagttagtggttacattcacatatggatatagtttaaaactgaattcaacatatttcttgcagATTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGGCCAATATGATCCAATGGAGGAAAGAATATGGTACAGATACAATTATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA