Sequence
atgc intronic sequence ATGC exonic sequence...taactatggcaaacttaattcattattttctcctgtttggtacattacatcatatgcgctaacatcttgaattttcttgttctgctgcttgtgtagacagCTATTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
Basic information
species | Glycine max |
transcript | GLYMA19G33030.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G33030.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G017365_T09 (Zea mays), 3'ss of exon 2
-------taactatggcaaacttaattcattattttctcctgtttggtacattacatcatatgcgctaacatcttgaattttcttgttctgctgcttgtgtagacagCTATTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
|| | | || | | |||| || || || | || | | || |||||||| |||| | | | || ||||||||||| ||||| ||||| |||| |||||| | || ||||| ||| | |||||||| || ||||||||||| ||||||||
tgccggaaaaaaacaccctgtttgtattacacttttaaccctttctgtccttt---tgctttgtgctaacattttgaccaccaccctatggttctttatgtagACAGCTGTTTCTATTGTTCCTGTCTTTCTCCTTGGCTGTTGAAGCATTACATGCATTTATGCAAGATGAATCGGAGCACAA
upper sequence: GLYMA19G33030.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G017365_T08 (Zea mays), 3'ss of exon 3
---taactatggcaaacttaattcattattttctcctgtttggtacattacatcatatgcgctaacatcttgaattttcttgttctgctgcttgtgtagacagCTATTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
|| | | || | | |||| || || || | || | | || |||||||| |||| | | | || ||||||||||| ||||| ||||| |||| |||||| | || ||||| ||| | |||||||| || ||||||||||| ||||||||
ggaaaaaaacaccctgtttgtattacacttttaaccctttctgtccttt---tgctttgtgctaacattttgaccaccaccctatggttctttatgtagacagCTGTTTCTATTGTTCCTGTCTTTCTCCTTGGCTGTTGAAGCATTACATGCATTTATGCAAGATGAATCGGAGCACAA
upper sequence: GLYMA19G33030.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G12100.1 (Arabidopsis thaliana), 3'ss of exon 3
taactatggcaaacttaattcattattttctcctgtttggtacattacatcatatgcgctaacatcttgaattttcttgt-tctgctgcttgtgtagacagCTATTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
| | | ||| || || ||| | | | | ||| | | | ||| | |||| || | | | | || ||||||||||||| || ||| |||| |||||||||||| |||| || || || ||||||||||| |||||||||||||||||||| ||
ccatacaatctatcttttcgttttgcctttcattgtctc-tgtagtttatctttttggttaatactttgatttgtttaatatttgacatatgtgtagacagCTGTTCCTTATGTTCATGTCATTCTCCTTAGCTGTGGAAGCTCTTCATGCATTTATACAAGATGAATCAGAGCATAA
upper sequence: GLYMA19G33030.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g06550.t01 (Vitis vinifera), 3'ss of exon 3
---taactatggcaaacttaattcattattttctcctgtttggtacattacatcatatgcgctaacatcttgaattttcttgttctgctgcttgtgtagacagCTATTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
| | || ||| | || | || | | | || || | | | | ||||||| | ||| || | ||||||||| ||| ||||||||| ||||| |||||||||||||||||| | || || || ||||||||||||||||||||||||||||| ||||||||
ttttcatcattatgtgatta--ttgttgtcatcatttttcttgttggttgctgcctctagactaacatgt-aaatattttgattctgctgcatgtttagacagCTGTTTCTGTTGTTTATGTCATTCTCCTTGGCTGTGGAAGCACTTCATGCATTCATACAAGATGAATCTGAGCACAAMapped 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|19347096|gb|BM891976.1|BM891976EST: GTATAAAAGGCTAGAAGTCTTGTCTGCATTTACAAATGCC CTATTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATG
genomic: GTATAAAAGGCTAGAAGTCTTGTCTGCATTTACAAATGCCgtaagtattc ... gtgtagacagCTATTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacatcatatgcgctaacatcttgaattttcttgttctgctgcttgtgtagacagCTATTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
cgctaac putative branch site (score: 2)
ttgaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taactatggcaaacttaattcattattttctcctgtttggtacattacatcatatgcgctaacatcttgaattttcttgttctgctgcttgtgtagacagCTATTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - -ctcctgt
- - - - - - - - - - - - - - - - - - - - - - - - - catatgc