Sequence
atgc intronic sequence ATGC exonic sequence...taatctctgttaatcatcaccaataggtactctaatgctaacttgttaaattagcagtttttgtgatttccttaattctgatctcttgcattgtgtatagCGAGAAAATGCTGTTGATAACTTCAGAGCTGGAAAAACATGGGTTTTGATTGCTACTGATGTAGTTGCCCGTGGCATGGATTTCAAAGGTGTGAACTGTG
Basic information
species | Glycine max |
transcript | GLYMA19G36300.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G36300.2 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os07g45360.1 (Oryza sativa), 3'ss of exon 9
taatctctgttaatcatcaccaataggtactctaatgctaacttgttaaattagcagtttttgtgatttccttaattctgatctcttgcattgtgtatagCGAGAAAATGCTGTTGATAACTTCAGAGCTGGAAAAACATGGGTTTTGATTGCTACTGATGTAGTTGCCCGTGGCATGGATTTCAAAGGTGTGAACTGTG
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--gtatcacttaat-atcatttttagttgct--aataaatgtttgtggtagttttgttttcactgctacacttggctcaatttctatctcctcactgaagCGTCAAGATGCTGTTGACAACTTGAGAGCCGGAAAGACTTGGGTACTGATAGCTACCGAAGTCATTGCCCGGGGAATGGATTTCAAAGGTGTTAACTGCG
upper sequence: GLYMA19G36300.2 (Glycine max), 3'ss of exon 10
lower sequence: AT3G09720.1 (Arabidopsis thaliana), 3'ss of exon 11
---taatctctgttaatcatcaccaataggtactctaatgctaacttgtt-aaattagcagtttttgtgatttccttaattctgatctcttgcattgtg-tatagCGAGAAAATGCTGTTGATAACTTCAGAGCTGGAAAAACATGGGTTTTGATTGCTACTGATGTAGTTGCCCGTGGCATGGATTTCAAAGGTGTGAACTGTG
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gtaaaatcatctttcat-gtagtcatcaaataaagtt-tgctcctctatggaaagtatagagatatataaattgatatgaaacaatttaccattggatgctgcagCGGGAAAATGCAGTTGATCAATTCAGAGCGGGAGAAAAATGGGTTTTGATAGCCACTGATGTGATTGCCAGAGGTATGGATTTCAAAGGCATCAACTGCG
upper sequence: GLYMA19G36300.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0040g02300.t01 (Vitis vinifera), 3'ss of exon 10
---taatct-ctgttaatcatcaccaataggtactctaatgctaacttgttaaattagcagtttttgtgatttccttaattctgatctcttgcattgtgtatagCGAGAAAATGCTGTTGATAACTTCAGAGCTGGAAAAACATGGGTTTTGATTGCTACTGATGTAGTTGCCCGTGGCATGGATTTCAAAGGTGTGAACTGTG
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ctctactcagctgcctattgatataaatcatgatttttatgcctccaagtttctttaccctcatgtttaatttatgccaat-tgattttac---ttaaatacagCGAGAAAATGCTGTGGATGACTTCAGAGCCGGGAAAACTTGGGTTTTGATTGCAACTGATGTTATTGCTCGTGGTATGGATTTCAAAGGCATTAACTGTGMapped 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|7925501|gb|AW831527.1|AW831527EST: TTGACAACATTAGAGTTGATGTTATCCATTCTGATTTGTCTCAAGCAGAG CGAGAAAATGCTGTTGATAACTTCAGAGCTGGAAAAACATGGGTTTTGATT
genomic: TTGACAACATTAGAGTTGATGTTATCCATTCTGATTTGTCTCAAGCAGAGgtagttctca ... ttgtgtatagCGAGAAAATGCTGTTGATAACTTCAGAGCTGGAAAAACATGGGTTTTGATT
EST:
gi|298171686|gb|HO021278.1|HO021278EST: TTGACAACATTAGAGTTGATGTTATCCATTCTGATTTGTCTCAAGCAGAG CGAGAAAATGCTGTTGATAACTTCAGAGCTGGAAAAACATGGGTTCTGATT
genomic: TTGACAACATTAGAGTTGATGTTATCCATTCTGATTTGTCTCAAGCAGAGgtagttctca ... ttgtgtatagCGAGAAAATGCTGTTGATAACTTCAGAGCTGGAAAAACATGGGTTTTGATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaattagcagtttttgtgatttccttaattctgatctcttgcattgtgtatagCGAGAAAATGCTGTTGATAACTTCAGAGCTGGAAAAACATGGGTTTTGATTGCTACTGATGTAGTTGCCCGTGGCATGGATTTCAAAGGTGTGAACTGTG
ttctgat putative branch site (score: 3)
ttaattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatctctgttaatcatcaccaataggtactctaatgctaacttgttaaattagcagtttttgtgatttccttaattctgatctcttgcattgtgtatagCGAGAAAATGCTGTTGATAACTTCAGAGCTGGAAAAACATGGGTTTTGATTGCTACTGATGTAGTTGCCCGTGGCATGGATTTCAAAGGTGTGAACTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - tcaccaa
- - - - - - - - - - - - - - - - - -tgctaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcttgc