Sequence
atgc intronic sequence ATGC exonic sequenceCTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAGGTAGCAGAGTTCTTTGATGCAGCAGTGAAGTTGGCTGTGAAGATTAAGGGACAGAGCAAAGgttcttacttcttagatcttcattatgcttcctgagtttgcgtttgtttctttatctgaaaatgactcataaattattttaacttctttctgttggcttgttgggtgcttactaagctaatatgtggttgatgttgaaattttttaatcag
Basic information
species | Glycine max |
transcript | GLYMA18G27710.1 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 15
lower sequence: LOC_Os03g52840.3 (Oryza sativa), 5'ss of exon 11
---CTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAGGTAGCAGAGTTCTTTGATGCAGCAGTGAAGTTGGCTGTGAAGATTAAGGGACAGAGCAAAGgttcttacttcttagatcttcattatgcttcctgagtttgcgtttgtttctttatctgaaaatgactcataaattattttaacttctttctgttggcttgttgggtgcttactaagctaatatgtggttgatgttgaaattttttaatcag
|| || || |||||||||||||||||||| |||| |||||| || || ||||| |||||||||||||| |||||| ||||| |||||| |||| | | ||| ||| | || || || || | ||| | | || ||| | | | | | | | | || | | | | || | | | | | ||| || ||| |||||
GCACTGACCTCAAGAGGATTTGTTGAGGAGGACTTTGCTAAGGTTGCTGATTTCTTCGATGCAGCAGTGAACTTGGCTTTGAAGGTTAAGGC-TGCAGCAGgtctgtcaaattcctagttttttttt-tgtttgaaaatgttgagaatacaaaacaattgttgcatgcat--tgaggtgccctcatatgatact-tcaccctaggatcatcgtattcatc-attttgtttttccccttgcaatttag-------
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 15
lower sequence: GRMZM2G135283_T02 (Zea mays), 5'ss of exon 13
CTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAGGTAGCAGAGTTCTTTGATGCAGCAGTGAAGTTGGCTGTGAAGATTAAGGGACAGAGCAAAGgttcttacttcttagatcttcattatgcttcctgagtttgcgtttgtttctttatctgaaaatgactcataaat-tattttaacttctttctgttggcttgttgggtgcttactaagctaatatgtggttgatgttgaaattttttaatcag-
||||| || |||||||||||||| || ||||| | ||| || || || ||||| |||||||||||||| |||| |||||||||||| | | |||| | | || | || | || ||| || | | | ||| | || || |||| | | || || ||| | | | | | || || | || || | || || | || |||
CTTACGTCGAGAGGATTTGTTGAAGAAGATTTCGCTAAAGTTGCTGACTTCTTCGATGCAGCAGTGAATCTGGCCTTGAAGATTAAGGCTGCAACGACAGgtcact----caaagtcttggttttttctccctaagaaaacaa--accacagtgactg--------ttttagatgcatttgcattcgttgaggtgtccttatcactagttggatgatctgatttatgttttgtttttaattcttgcaatttag
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv00s0211g00070.t01 (Vitis vinifera), 5'ss of exon 14
CTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAGGTAGCAGAGTTCTTTGATGCAGCAGTGAAGTTGGCTGTGAAGATTAAGGGACAGAGCAAAGgttcttacttct-tag-atcttcattatgcttcctgagttt-gcgtttgtttctttatctgaaaatgactcataaattattttaacttctttctgttggcttgttgggtgcttactaagctaatatgtggttgatgttgaaattttttaatcag-
|||||||||||||||||||||||| ||||||||||||| |||||||| | |||||| || || |||| |||| |||||||| |||| | | | |||| | | |||| ||| || || | ||||| |||| | || | | | | | | | | | || ||| || | || ||||| ||||||| | | || | ||||| | || || |
CTTACTTCTAGAGGATTTGTTGAGAAGGATTTTGTTAAAGTAGCAGAATACTTTGACGCTGCTGTGACCGTGGCAGTGAAGATCAAGGCTGAAACTACAGgtcttaaattctatagtatatttctcttgcttagtgagccaagagtctatctgatcacc----accactttagcaaatatgtttgtgacaacctccatgcttga-----atttactaat---acaagttttctatgtttggttcttgcaacccag
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv00s0211g00120.t01 (Vitis vinifera), 5'ss of exon 14
CTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAGGTAGCAGAGTTCTTTGATGCAGCAGTGAAGTTGGCTGTGAAGATTAAGGGACAGAGCAAAGgttcttacttcttagatcttcattatgcttcctgagtttgcgtttgtttctttatctgaaaatgactcataaattattttaacttctttctgttggcttgttgggtgcttactaagctaatatgtggttgatgttgaaattttttaatcag-
|||||||||||||||||||||||||||||||||||||| |||||||| | |||||| || || |||| |||| |||||||| |||| | | | |||| | | | || | | ||| ||| || ||| || | ||||||| | || | | | | || | | | | || | | ||||||| || || || | ||||| | || || |
CTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAAGTAGCAGAATACTTTGACGCTGCTGTGACCGTGGCAGTGAAGATCAAGGCTGAAACTACAGgtcttaaaattctatag-tatatttctcttgcttagtgagc---caagagtctatctgatcaccaccactttagcaaatatgtttgtgacagcctccatgcttga-atttactaa--tactaggtt-tctatgtttggttcttgcaacccag
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv00s0211g00090.t01 (Vitis vinifera), 5'ss of exon 6
CTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAGGTAGCAGAGTTCTTTGATGCAGCAGTGAAGTTGGCTGTGAAGATTAAGGGACAGAGCAAAGgttcttacttcttagatcttcattatgcttcctgagtttgcgtttgtttctttatctgaaaatgactcataaattattttaacttctttctgttggcttgttgggtgcttactaagctaatatgtggttgatgttgaaattttttaatcag-
||||||||||||||||||||||| |||||||||||||| |||||||| | |||||| | || |||| |||| |||||||| |||| | | | |||| | | | || | | ||| ||| || ||| || | ||||||| | || | | | | || | | | || | | ||||||| | | || | ||||| | || || |
CTTACTTCTAGAGGATTTGTTGAAGAGGATTTTGTTAAAGTAGCAGAATACTTTGACGTTGCTGTGACCGTGGCAGTGAAGATCAAGGCTGAAACTACAGgtcttaaaattctatag-tatatttctcttgcttagtgagc---caagagtctatctgatcaccaccactttagcaaatatgtttgtgacaacctccatgcttga-atttactaat---acaagttttctatgtttggttcttgcaacccagMapped 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|120533930|gb|EH262063.1|EH262063EST: CTTTGATGCAGCAGTGAAGTTGGCTGTGAAGATTAAGGGACAGAGCAAAG GAACAAAGCTGAAGGACTTCTTGGCCACAA
genomic: CTTTGATGCAGCAGTGAAGTTGGCTGTGAAGATTAAGGGACAGAGCAAAGgttcttactt ... ttttaatcagGAACAAAGCTGAAGGACTTCTTGGCCACAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAGGTAGCAGAGTTCTTTGATGCAGCAGTGAAGTTGGCTGTGAAGATTAAGGGACAGAGCAAAGgttcttacttcttagatcttcattatgcttcctgagtttgcgtttgtttctttatctgaaaatgactcataaattattttaacttctttctgttggcttgttgggtgcttactaagctaatatgtggttgatgttgaaattttttaatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG